This pipeline computes the correlation between significant arm-level copy number variations (cnvs) and molecular subtypes.
Testing the association between copy number variation 80 arm-level events and 12 molecular subtypes across 1007 patients, 555 significant findings detected with P value < 0.05 and Q value < 0.25.
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1p gain cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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1q gain cnv correlated to 'MRNA_CNMF', 'CN_CNMF', and 'METHLYATION_CNMF'.
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2p gain cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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2q gain cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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3p gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
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3q gain cnv correlated to 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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4p gain cnv correlated to 'MRNA_CNMF', 'CN_CNMF', 'METHLYATION_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
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4q gain cnv correlated to 'MRNA_CNMF' and 'CN_CNMF'.
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5p gain cnv correlated to 'CN_CNMF'.
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5q gain cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CNMF'.
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6p gain cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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6q gain cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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7p gain cnv correlated to 'CN_CNMF' and 'MRNASEQ_CHIERARCHICAL'.
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7q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CHIERARCHICAL'.
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8p gain cnv correlated to 'CN_CNMF'.
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8q gain cnv correlated to 'MRNA_CNMF', 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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9p gain cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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9q gain cnv correlated to 'CN_CNMF'.
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10p gain cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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10q gain cnv correlated to 'CN_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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11p gain cnv correlated to 'CN_CNMF', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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11q gain cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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12p gain cnv correlated to 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
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12q gain cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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13q gain cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
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14q gain cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CNMF'.
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16p gain cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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17p gain cnv correlated to 'CN_CNMF'.
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17q gain cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CHIERARCHICAL'.
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18p gain cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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18q gain cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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19p gain cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
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19q gain cnv correlated to 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
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20p gain cnv correlated to 'MRNA_CNMF', 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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20q gain cnv correlated to 'MRNA_CNMF', 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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21q gain cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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22q gain cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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xq gain cnv correlated to 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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1p loss cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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2p loss cnv correlated to 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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2q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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3p loss cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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3q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CNMF'.
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4p loss cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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4q loss cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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5p loss cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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5q loss cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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6p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MRNASEQ_CHIERARCHICAL'.
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6q loss cnv correlated to 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CHIERARCHICAL'.
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7p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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7q loss cnv correlated to 'CN_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
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8p loss cnv correlated to 'MRNA_CNMF', 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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9p loss cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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9q loss cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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10p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MRNASEQ_CNMF'.
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10q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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11p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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11q loss cnv correlated to 'MRNA_CNMF', 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
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12p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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12q loss cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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13q loss cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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14q loss cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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15q loss cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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16p loss cnv correlated to 'CN_CNMF', 'MIRSEQ_CNMF', and 'MIRSEQ_MATURE_CNMF'.
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16q loss cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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17p loss cnv correlated to 'MRNA_CNMF', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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17q loss cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'RPPA_CNMF', 'RPPA_CHIERARCHICAL', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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18p loss cnv correlated to 'MRNA_CNMF', 'CN_CNMF', and 'METHLYATION_CNMF'.
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18q loss cnv correlated to 'MRNA_CNMF', 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', and 'MIRSEQ_MATURE_CNMF'.
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19p loss cnv correlated to 'MRNA_CNMF', 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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19q loss cnv correlated to 'MRNA_CHIERARCHICAL', 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.
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20p loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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20q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', 'MIRSEQ_CHIERARCHICAL', 'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.
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21q loss cnv correlated to 'CN_CNMF'.
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22q loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', and 'MRNASEQ_CNMF'.
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xq loss cnv correlated to 'CN_CNMF', 'METHLYATION_CNMF', 'MRNASEQ_CNMF', 'MRNASEQ_CHIERARCHICAL', 'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.
Table 1. Get Full Table Overview of the association between significant copy number variation of 80 arm-level events and 12 molecular subtypes. Shown in the table are P values (Q values). Thresholded by P value < 0.05 and Q value < 0.25, 555 significant findings detected.
|
Clinical Features |
MRNA CNMF |
MRNA CHIERARCHICAL |
CN CNMF |
METHLYATION CNMF |
RPPA CNMF |
RPPA CHIERARCHICAL |
MRNASEQ CNMF |
MRNASEQ CHIERARCHICAL |
MIRSEQ CNMF |
MIRSEQ CHIERARCHICAL |
MIRSEQ MATURE CNMF |
MIRSEQ MATURE CHIERARCHICAL |
||
| nCNV (%) | nWild-Type | Chi-square test | Fisher's exact test | Chi-square test | Chi-square test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | Fisher's exact test | |
| 1p gain | 191 (19%) | 816 |
3.72e-09 (2.68e-06) |
9.02e-10 (6.64e-07) |
4.68e-17 (4.13e-14) |
2.32e-08 (1.58e-05) |
1.83e-06 (0.00108) |
1.41e-05 (0.0078) |
2.31e-18 (2.07e-15) |
1.26e-15 (1.09e-12) |
4.23e-11 (3.3e-08) |
1.1e-16 (9.6e-14) |
1.05e-09 (7.74e-07) |
4.73e-09 (3.38e-06) |
| 2p gain | 113 (11%) | 894 |
9.24e-15 (7.84e-12) |
1.41e-14 (1.19e-11) |
9.97e-18 (8.88e-15) |
2.72e-13 (2.25e-10) |
1.55e-10 (1.18e-07) |
3.16e-10 (2.38e-07) |
2.75e-29 (2.59e-26) |
1.36e-27 (1.27e-24) |
7.91e-23 (7.31e-20) |
1e-22 (9.25e-20) |
3.72e-22 (3.42e-19) |
3.08e-13 (2.54e-10) |
| 2q gain | 70 (7%) | 937 |
2.56e-07 (0.00016) |
1.49e-07 (9.48e-05) |
1.63e-09 (1.2e-06) |
7.16e-08 (4.7e-05) |
1.36e-06 (0.000812) |
1.88e-05 (0.0102) |
1.74e-14 (1.46e-11) |
4.97e-14 (4.16e-11) |
1.33e-11 (1.05e-08) |
1.28e-10 (9.81e-08) |
5.16e-13 (4.22e-10) |
3.59e-07 (0.000223) |
| 10p gain | 197 (20%) | 810 |
1.8e-09 (1.32e-06) |
5.78e-08 (3.85e-05) |
9.42e-27 (8.8e-24) |
3.63e-15 (3.11e-12) |
2.4e-05 (0.013) |
2.46e-05 (0.0132) |
9.79e-17 (8.57e-14) |
8.79e-17 (7.7e-14) |
2.37e-15 (2.04e-12) |
2.01e-17 (1.77e-14) |
1.25e-12 (1.01e-09) |
2.09e-10 (1.59e-07) |
| 21q gain | 184 (18%) | 823 |
5.21e-10 (3.88e-07) |
6.2e-07 (0.00038) |
1.32e-15 (1.14e-12) |
6.71e-09 (4.74e-06) |
0.000202 (0.0929) |
7.86e-05 (0.0393) |
1.99e-16 (1.74e-13) |
2.17e-16 (1.89e-13) |
1.55e-08 (1.06e-05) |
8.44e-13 (6.86e-10) |
1.83e-08 (1.26e-05) |
1.01e-07 (6.57e-05) |
| 3p loss | 171 (17%) | 836 |
2.85e-06 (0.00166) |
9e-05 (0.0444) |
9.47e-15 (8.02e-12) |
1.19e-07 (7.67e-05) |
0.000382 (0.164) |
8.85e-05 (0.0439) |
1.61e-10 (1.23e-07) |
7.04e-08 (4.63e-05) |
1.11e-10 (8.49e-08) |
5.66e-08 (3.78e-05) |
4.15e-08 (2.79e-05) |
8.4e-05 (0.0418) |
| 4p loss | 330 (33%) | 677 |
2.99e-14 (2.51e-11) |
2.91e-13 (2.41e-10) |
3.95e-37 (3.77e-34) |
5.22e-19 (4.71e-16) |
4.59e-07 (0.000282) |
8.75e-07 (0.000529) |
7.94e-29 (7.46e-26) |
5.35e-27 (5.02e-24) |
1.31e-21 (1.2e-18) |
4.71e-23 (4.36e-20) |
2.02e-20 (1.83e-17) |
8.08e-17 (7.09e-14) |
| 5p loss | 132 (13%) | 875 |
6.42e-17 (5.64e-14) |
1.72e-12 (1.38e-09) |
4.32e-35 (4.11e-32) |
9.63e-23 (8.9e-20) |
6.63e-08 (4.37e-05) |
6.96e-10 (5.16e-07) |
2.62e-26 (2.44e-23) |
8.04e-27 (7.52e-24) |
5.43e-25 (5.05e-22) |
1.22e-28 (1.15e-25) |
1.25e-18 (1.12e-15) |
3.62e-18 (3.24e-15) |
| 5q loss | 215 (21%) | 792 |
3.8e-26 (3.54e-23) |
1e-20 (9.11e-18) |
1.62e-75 (1.56e-72) |
5.35e-46 (5.11e-43) |
1.2e-13 (9.95e-11) |
1.18e-13 (9.84e-11) |
1.22e-49 (1.16e-46) |
4.74e-52 (4.54e-49) |
4.44e-51 (4.25e-48) |
1.4e-52 (1.34e-49) |
2.22e-34 (2.1e-31) |
1.14e-33 (1.08e-30) |
| 9q loss | 269 (27%) | 738 |
6.82e-05 (0.0347) |
3.55e-06 (0.00205) |
3.83e-26 (3.57e-23) |
4.82e-14 (4.04e-11) |
3.37e-06 (0.00196) |
0.000331 (0.145) |
4.44e-13 (3.65e-10) |
3.3e-12 (2.63e-09) |
1.08e-12 (8.73e-10) |
7.74e-15 (6.6e-12) |
3.96e-08 (2.66e-05) |
1.38e-06 (0.000823) |
| 12q loss | 124 (12%) | 883 |
5.14e-09 (3.66e-06) |
4.1e-08 (2.76e-05) |
8.11e-15 (6.9e-12) |
1.35e-20 (1.22e-17) |
0.000215 (0.0983) |
1.16e-05 (0.00646) |
1.07e-17 (9.46e-15) |
2.1e-16 (1.83e-13) |
2.78e-14 (2.34e-11) |
3.21e-15 (2.75e-12) |
1.19e-12 (9.65e-10) |
1.14e-10 (8.74e-08) |
| 14q loss | 240 (24%) | 767 |
1.2e-14 (1.02e-11) |
5.9e-10 (4.39e-07) |
4.64e-35 (4.4e-32) |
1.67e-20 (1.51e-17) |
5.79e-06 (0.0033) |
4.45e-06 (0.00257) |
1.61e-22 (1.48e-19) |
8.56e-24 (7.94e-21) |
2.3e-21 (2.11e-18) |
1.63e-23 (1.51e-20) |
2.32e-17 (2.05e-14) |
1.04e-15 (8.97e-13) |
| 16q loss | 561 (56%) | 446 |
3.87e-09 (2.78e-06) |
2.06e-10 (1.57e-07) |
3.9e-10 (2.91e-07) |
4.28e-12 (3.41e-09) |
0.000111 (0.054) |
1.09e-06 (0.000656) |
3.97e-16 (3.45e-13) |
4.88e-17 (4.3e-14) |
4.5e-13 (3.69e-10) |
7.3e-18 (6.51e-15) |
1.84e-08 (1.26e-05) |
1.95e-07 (0.000124) |
| 17q loss | 255 (25%) | 752 |
2.24e-12 (1.79e-09) |
3.34e-10 (2.5e-07) |
5.74e-22 (5.26e-19) |
2.51e-15 (2.15e-12) |
7.36e-10 (5.45e-07) |
2.44e-10 (1.84e-07) |
6.55e-18 (5.85e-15) |
5.78e-17 (5.09e-14) |
5.94e-13 (4.84e-10) |
8.54e-16 (7.4e-13) |
6.07e-09 (4.32e-06) |
2.74e-07 (0.000172) |
| 6p gain | 197 (20%) | 810 |
5.32e-07 (0.000326) |
4.84e-06 (0.00277) |
1.21e-33 (1.15e-30) |
1.25e-17 (1.11e-14) |
5.5e-05 (0.0284) |
0.00458 (1.00) |
1.95e-18 (1.75e-15) |
1.57e-19 (1.41e-16) |
4.34e-18 (3.88e-15) |
6.68e-21 (6.07e-18) |
3.04e-15 (2.61e-12) |
1e-10 (7.73e-08) |
| 6q gain | 141 (14%) | 866 |
1.58e-07 (1e-04) |
1.45e-05 (0.00797) |
2.21e-32 (2.09e-29) |
2.14e-11 (1.69e-08) |
3.39e-06 (0.00196) |
0.00294 (0.942) |
5.32e-15 (4.55e-12) |
1.01e-13 (8.38e-11) |
6.42e-17 (5.64e-14) |
2.6e-16 (2.26e-13) |
8.99e-14 (7.5e-11) |
1.92e-10 (1.46e-07) |
| 9p gain | 130 (13%) | 877 |
8.81e-10 (6.5e-07) |
1.27e-07 (8.17e-05) |
1.03e-17 (9.2e-15) |
4.54e-06 (0.0026) |
0.0085 (1.00) |
3.85e-06 (0.00222) |
2.26e-08 (1.54e-05) |
3.2e-09 (2.32e-06) |
4.46e-06 (0.00257) |
3.31e-08 (2.24e-05) |
0.000536 (0.219) |
0.000248 (0.112) |
| 18p gain | 161 (16%) | 846 |
1.1e-06 (0.000656) |
6.37e-08 (4.21e-05) |
8.25e-15 (7.01e-12) |
1.08e-12 (8.76e-10) |
0.00147 (0.531) |
4.82e-05 (0.025) |
8.53e-15 (7.24e-12) |
8.2e-20 (7.4e-17) |
2.16e-11 (1.7e-08) |
7.17e-14 (5.99e-11) |
1.2e-08 (8.35e-06) |
7.29e-10 (5.4e-07) |
| 22q gain | 91 (9%) | 916 |
1.66e-05 (0.00912) |
1.76e-06 (0.00104) |
1.28e-11 (1.01e-08) |
5.38e-05 (0.0279) |
8.26e-06 (0.00464) |
0.00376 (1.00) |
6.3e-15 (5.38e-12) |
1.33e-12 (1.07e-09) |
2.11e-09 (1.54e-06) |
3.63e-11 (2.84e-08) |
7.81e-06 (0.00439) |
1.92e-06 (0.00113) |
| 4q loss | 294 (29%) | 713 |
1.12e-07 (7.24e-05) |
9.7e-08 (6.32e-05) |
7.72e-29 (7.27e-26) |
3.62e-11 (2.84e-08) |
0.00036 (0.155) |
0.0009 (0.347) |
6.79e-20 (6.14e-17) |
1.05e-17 (9.36e-15) |
1.29e-12 (1.04e-09) |
2.24e-14 (1.89e-11) |
4.43e-13 (3.65e-10) |
1.85e-09 (1.35e-06) |
| 18q gain | 140 (14%) | 867 |
7.26e-05 (0.0365) |
0.000119 (0.0573) |
1.39e-12 (1.12e-09) |
7.3e-05 (0.0367) |
0.176 (1.00) |
0.0658 (1.00) |
6.25e-09 (4.43e-06) |
5.18e-10 (3.86e-07) |
8.9e-07 (0.000537) |
1.77e-05 (0.00966) |
0.000462 (0.192) |
0.000233 (0.106) |
| 9p loss | 297 (29%) | 710 |
1.92e-05 (0.0104) |
0.000177 (0.0832) |
1.25e-36 (1.19e-33) |
4.02e-15 (3.44e-12) |
0.0017 (0.603) |
0.311 (1.00) |
3.92e-09 (2.81e-06) |
2.29e-10 (1.73e-07) |
4.6e-10 (3.44e-07) |
2.5e-10 (1.88e-07) |
4.13e-07 (0.000255) |
0.000241 (0.109) |
| 13q loss | 408 (41%) | 599 |
5.59e-05 (0.0288) |
6.32e-06 (0.00357) |
4.63e-24 (4.31e-21) |
1.96e-08 (1.34e-05) |
0.349 (1.00) |
0.247 (1.00) |
1.92e-08 (1.31e-05) |
3.62e-09 (2.61e-06) |
5.96e-08 (3.96e-05) |
1.39e-07 (8.86e-05) |
2.18e-07 (0.000137) |
0.000194 (0.0903) |
| 15q loss | 302 (30%) | 705 |
1.95e-05 (0.0106) |
1.14e-05 (0.00637) |
5.12e-31 (4.84e-28) |
5.11e-13 (4.19e-10) |
0.00426 (1.00) |
0.00195 (0.675) |
1.1e-15 (9.5e-13) |
2.92e-13 (2.41e-10) |
3.14e-14 (2.64e-11) |
5.21e-13 (4.26e-10) |
2.27e-10 (1.72e-07) |
6.46e-09 (4.57e-06) |
| 19p loss | 179 (18%) | 828 |
2.62e-05 (0.014) |
2.68e-05 (0.0142) |
1.57e-20 (1.43e-17) |
2.89e-12 (2.3e-09) |
0.0231 (1.00) |
0.0273 (1.00) |
3.19e-08 (2.17e-05) |
5.77e-11 (4.47e-08) |
4.11e-11 (3.22e-08) |
8.21e-12 (6.52e-09) |
6.16e-09 (4.38e-06) |
6.53e-05 (0.0334) |
| 3q gain | 202 (20%) | 805 |
0.000917 (0.352) |
3.37e-06 (0.00196) |
1.32e-17 (1.17e-14) |
1.03e-10 (7.91e-08) |
0.0118 (1.00) |
0.106 (1.00) |
8.53e-12 (6.76e-09) |
1.45e-12 (1.17e-09) |
8.42e-13 (6.85e-10) |
3.7e-11 (2.9e-08) |
2e-10 (1.52e-07) |
9.31e-11 (7.2e-08) |
| 8q gain | 495 (49%) | 512 |
6.86e-05 (0.0348) |
0.0095 (1.00) |
2.64e-22 (2.43e-19) |
3.88e-13 (3.19e-10) |
0.122 (1.00) |
0.441 (1.00) |
5.01e-07 (0.000307) |
2.87e-09 (2.09e-06) |
4.48e-11 (3.49e-08) |
1.35e-10 (1.03e-07) |
3.33e-11 (2.61e-08) |
1e-07 (6.52e-05) |
| 16p gain | 447 (44%) | 560 |
0.000344 (0.149) |
0.000409 (0.175) |
7.97e-10 (5.89e-07) |
1.6e-05 (0.00878) |
0.00236 (0.79) |
0.00216 (0.736) |
2.18e-07 (0.000137) |
1.18e-08 (8.21e-06) |
6.95e-06 (0.00392) |
0.00383 (1.00) |
1.75e-05 (0.00955) |
0.000258 (0.115) |
| 20q gain | 422 (42%) | 585 |
7.43e-05 (0.0372) |
0.0074 (1.00) |
2.16e-36 (2.06e-33) |
1.24e-14 (1.05e-11) |
0.0468 (1.00) |
0.424 (1.00) |
8.24e-09 (5.79e-06) |
2.46e-08 (1.67e-05) |
1.37e-06 (0.000816) |
2.12e-06 (0.00125) |
3.44e-05 (0.0181) |
2.81e-05 (0.0149) |
| 17p loss | 540 (54%) | 467 |
3.58e-09 (2.58e-06) |
0.0436 (1.00) |
3.99e-22 (3.67e-19) |
1.6e-06 (0.000953) |
8.96e-07 (0.000539) |
0.000628 (0.254) |
6.78e-06 (0.00383) |
0.000454 (0.191) |
5.22e-08 (3.48e-05) |
6.92e-05 (0.0351) |
1.09e-05 (0.00609) |
0.0266 (1.00) |
| 20p gain | 389 (39%) | 618 |
3e-05 (0.0158) |
0.00609 (1.00) |
1.6e-31 (1.51e-28) |
3.81e-09 (2.74e-06) |
0.00492 (1.00) |
0.0574 (1.00) |
2.86e-07 (0.000179) |
1.54e-06 (0.000918) |
2.6e-05 (0.0139) |
0.000262 (0.117) |
0.00211 (0.723) |
0.000201 (0.0925) |
| 2p loss | 170 (17%) | 837 |
0.012 (1.00) |
6.35e-05 (0.0325) |
7.62e-15 (6.5e-12) |
1.49e-07 (9.48e-05) |
0.00102 (0.388) |
0.0015 (0.541) |
3.63e-08 (2.45e-05) |
1.48e-10 (1.13e-07) |
0.000126 (0.0602) |
0.000314 (0.138) |
0.00161 (0.577) |
0.00033 (0.145) |
| 7p loss | 105 (10%) | 902 |
0.0427 (1.00) |
0.00135 (0.491) |
8.19e-10 (6.04e-07) |
7.1e-05 (0.0359) |
0.0891 (1.00) |
0.215 (1.00) |
1.16e-05 (0.00646) |
2.05e-05 (0.0111) |
2.25e-08 (1.54e-05) |
3.51e-08 (2.38e-05) |
0.000122 (0.0586) |
2.9e-05 (0.0154) |
| 8p loss | 371 (37%) | 636 |
4.52e-05 (0.0236) |
0.0109 (1.00) |
1.65e-18 (1.48e-15) |
3.86e-07 (0.000239) |
0.0704 (1.00) |
0.219 (1.00) |
2.39e-06 (0.0014) |
3.94e-05 (0.0206) |
6.61e-07 (0.000403) |
1.3e-07 (8.29e-05) |
4.74e-05 (0.0247) |
0.00395 (1.00) |
| 11p loss | 259 (26%) | 748 |
0.00536 (1.00) |
0.0672 (1.00) |
3.23e-21 (2.94e-18) |
1.08e-08 (7.51e-06) |
0.00775 (1.00) |
0.00536 (1.00) |
1.63e-07 (0.000103) |
1.17e-07 (7.56e-05) |
5.87e-06 (0.00334) |
3.53e-07 (0.00022) |
2.84e-06 (0.00166) |
0.000293 (0.13) |
| 12p loss | 144 (14%) | 863 |
0.00305 (0.969) |
0.00126 (0.461) |
9.43e-08 (6.16e-05) |
6.76e-08 (4.46e-05) |
0.0133 (1.00) |
0.0221 (1.00) |
1.3e-09 (9.55e-07) |
6.3e-07 (0.000385) |
6.28e-08 (4.16e-05) |
1.41e-08 (9.76e-06) |
2.42e-06 (0.00142) |
0.000318 (0.139) |
| 19q loss | 152 (15%) | 855 |
0.00372 (1.00) |
0.000338 (0.147) |
2.51e-18 (2.25e-15) |
3.8e-08 (2.56e-05) |
0.108 (1.00) |
0.108 (1.00) |
1.02e-07 (6.59e-05) |
1.8e-12 (1.44e-09) |
1e-08 (6.99e-06) |
3.52e-09 (2.54e-06) |
9.8e-07 (0.000589) |
0.00148 (0.535) |
| 20p loss | 88 (9%) | 919 |
0.00352 (1.00) |
0.000956 (0.365) |
1.09e-10 (8.36e-08) |
9.22e-12 (7.3e-09) |
0.189 (1.00) |
0.205 (1.00) |
4.88e-11 (3.79e-08) |
4.75e-11 (3.69e-08) |
2.89e-10 (2.18e-07) |
6.47e-10 (4.81e-07) |
3.23e-08 (2.19e-05) |
8.91e-09 (6.25e-06) |
| 20q loss | 51 (5%) | 956 |
0.00774 (1.00) |
0.00962 (1.00) |
1.03e-07 (6.66e-05) |
2.92e-10 (2.2e-07) |
0.177 (1.00) |
0.0389 (1.00) |
5.07e-08 (3.39e-05) |
1.23e-08 (8.54e-06) |
4.39e-07 (0.000271) |
4.88e-08 (3.27e-05) |
8.61e-08 (5.64e-05) |
7.15e-09 (5.04e-06) |
| 11q gain | 90 (9%) | 917 |
0.277 (1.00) |
0.88 (1.00) |
4.64e-09 (3.31e-06) |
0.00254 (0.832) |
0.96 (1.00) |
0.566 (1.00) |
0.00015 (0.0709) |
0.000412 (0.176) |
0.000105 (0.0512) |
7.13e-05 (0.0359) |
0.000423 (0.18) |
3.82e-05 (0.02) |
| 12p gain | 216 (21%) | 791 |
0.00181 (0.636) |
0.000407 (0.174) |
5.32e-21 (4.84e-18) |
2.83e-09 (2.06e-06) |
0.0768 (1.00) |
0.0112 (1.00) |
1.06e-07 (6.86e-05) |
6.78e-09 (4.78e-06) |
2.41e-05 (0.013) |
7.29e-06 (0.0041) |
0.000743 (0.294) |
0.0153 (1.00) |
| 17q gain | 207 (21%) | 800 |
8.87e-09 (6.22e-06) |
5.8e-05 (0.0298) |
5.9e-22 (5.4e-19) |
2.03e-07 (0.000128) |
0.506 (1.00) |
0.0206 (1.00) |
8.59e-07 (0.00052) |
1.21e-08 (8.39e-06) |
0.0579 (1.00) |
2.74e-06 (0.0016) |
0.645 (1.00) |
0.00923 (1.00) |
| xq gain | 131 (13%) | 876 |
0.000972 (0.369) |
8.96e-05 (0.0442) |
9e-09 (6.3e-06) |
0.0024 (0.796) |
0.689 (1.00) |
0.0445 (1.00) |
8.6e-07 (0.000521) |
3.89e-07 (0.00024) |
8.24e-08 (5.41e-05) |
1.57e-05 (0.00863) |
0.00022 (0.1) |
0.016 (1.00) |
| 10q loss | 214 (21%) | 793 |
0.00356 (1.00) |
0.00137 (0.499) |
2.32e-13 (1.93e-10) |
4.18e-11 (3.27e-08) |
0.00113 (0.421) |
0.0225 (1.00) |
3.11e-09 (2.26e-06) |
6.04e-08 (4.01e-05) |
0.000115 (0.0555) |
2.02e-07 (0.000127) |
0.000447 (0.188) |
0.00114 (0.422) |
| 3p gain | 137 (14%) | 870 |
0.0962 (1.00) |
0.000943 (0.361) |
1.02e-10 (7.86e-08) |
2.65e-05 (0.0141) |
0.364 (1.00) |
0.209 (1.00) |
1.82e-05 (0.00992) |
3.84e-07 (0.000238) |
0.000146 (0.0695) |
0.000168 (0.0794) |
0.00167 (0.596) |
0.00222 (0.751) |
| 1p loss | 230 (23%) | 777 |
0.000238 (0.108) |
6.75e-07 (0.000411) |
4.65e-22 (4.27e-19) |
1.25e-07 (8.05e-05) |
0.697 (1.00) |
0.683 (1.00) |
1.04e-07 (6.72e-05) |
9.61e-13 (7.8e-10) |
0.0474 (1.00) |
0.0258 (1.00) |
0.808 (1.00) |
0.15 (1.00) |
| 6q loss | 255 (25%) | 752 |
0.00106 (0.401) |
0.00019 (0.0887) |
2.73e-16 (2.37e-13) |
5.57e-05 (0.0288) |
0.281 (1.00) |
0.111 (1.00) |
0.000185 (0.0865) |
0.000125 (0.0601) |
0.0645 (1.00) |
6.05e-06 (0.00343) |
0.022 (1.00) |
0.0109 (1.00) |
| xq loss | 168 (17%) | 839 |
0.139 (1.00) |
0.0319 (1.00) |
4.8e-11 (3.73e-08) |
2.47e-05 (0.0133) |
0.0366 (1.00) |
0.0247 (1.00) |
0.000245 (0.111) |
3.47e-05 (0.0182) |
2.47e-05 (0.0133) |
0.000113 (0.0546) |
0.0273 (1.00) |
0.36 (1.00) |
| 7q gain | 247 (25%) | 760 |
0.00175 (0.617) |
0.0145 (1.00) |
7.96e-09 (5.6e-06) |
0.000455 (0.191) |
0.0509 (1.00) |
0.0965 (1.00) |
6.8e-05 (0.0347) |
8.84e-08 (5.78e-05) |
0.00245 (0.806) |
1.25e-05 (0.00697) |
0.0302 (1.00) |
0.00262 (0.85) |
| 10q gain | 113 (11%) | 894 |
0.0585 (1.00) |
0.0339 (1.00) |
3.91e-08 (2.64e-05) |
0.00866 (1.00) |
0.0479 (1.00) |
0.0475 (1.00) |
0.000777 (0.304) |
0.000207 (0.0947) |
0.000305 (0.134) |
0.000197 (0.0912) |
8.93e-05 (0.0442) |
0.0199 (1.00) |
| 13q gain | 89 (9%) | 918 |
0.302 (1.00) |
0.259 (1.00) |
3.09e-05 (0.0163) |
0.0134 (1.00) |
0.0203 (1.00) |
0.0953 (1.00) |
0.000141 (0.0673) |
8.69e-05 (0.0432) |
0.00028 (0.124) |
0.000489 (0.202) |
0.095 (1.00) |
0.179 (1.00) |
| 19p gain | 171 (17%) | 836 |
0.00076 (0.298) |
0.00119 (0.44) |
3.32e-10 (2.49e-07) |
0.0227 (1.00) |
0.0065 (1.00) |
0.0204 (1.00) |
0.000124 (0.0597) |
5.68e-06 (0.00324) |
2.98e-05 (0.0158) |
0.000468 (0.195) |
0.000823 (0.321) |
0.0771 (1.00) |
| 19q gain | 202 (20%) | 805 |
0.00334 (1.00) |
0.00311 (0.986) |
6.9e-13 (5.62e-10) |
0.0228 (1.00) |
0.0125 (1.00) |
0.047 (1.00) |
0.000454 (0.191) |
8.08e-05 (0.0403) |
0.000136 (0.0648) |
9.84e-05 (0.0484) |
0.00238 (0.792) |
0.0502 (1.00) |
| 2q loss | 192 (19%) | 815 |
0.133 (1.00) |
0.00166 (0.592) |
8.5e-14 (7.1e-11) |
1.78e-06 (0.00105) |
0.000444 (0.188) |
0.000711 (0.284) |
0.000334 (0.146) |
7.96e-07 (0.000483) |
0.00173 (0.613) |
0.00116 (0.427) |
0.00363 (1.00) |
0.00936 (1.00) |
| 3q loss | 94 (9%) | 913 |
0.00194 (0.673) |
0.00558 (1.00) |
2.14e-06 (0.00126) |
0.000446 (0.188) |
0.189 (1.00) |
0.0668 (1.00) |
0.000509 (0.21) |
0.000528 (0.217) |
0.000528 (0.217) |
0.00112 (0.417) |
0.00296 (0.944) |
0.39 (1.00) |
| 11q loss | 350 (35%) | 657 |
0.000217 (0.0991) |
0.107 (1.00) |
3.11e-30 (2.93e-27) |
1.13e-08 (7.87e-06) |
0.762 (1.00) |
1 (1.00) |
0.000557 (0.226) |
0.00396 (1.00) |
0.337 (1.00) |
4.47e-06 (0.00257) |
0.0774 (1.00) |
0.123 (1.00) |
| 18q loss | 303 (30%) | 704 |
0.000199 (0.092) |
0.309 (1.00) |
1.05e-15 (9.04e-13) |
1.48e-08 (1.02e-05) |
0.0267 (1.00) |
0.244 (1.00) |
0.000263 (0.117) |
0.00923 (1.00) |
0.000823 (0.321) |
0.00074 (0.294) |
6.27e-06 (0.00356) |
0.0762 (1.00) |
| 4p gain | 73 (7%) | 934 |
0.000105 (0.0513) |
0.00261 (0.85) |
4.75e-13 (3.89e-10) |
0.00055 (0.224) |
0.483 (1.00) |
0.202 (1.00) |
0.0127 (1.00) |
0.000717 (0.285) |
0.252 (1.00) |
0.00035 (0.151) |
0.682 (1.00) |
0.176 (1.00) |
| 5q gain | 196 (19%) | 811 |
0.0137 (1.00) |
0.00902 (1.00) |
3.3e-25 (3.07e-22) |
0.000691 (0.277) |
0.000889 (0.344) |
0.000756 (0.298) |
9.87e-05 (0.0485) |
6.76e-07 (0.000411) |
0.000183 (0.0856) |
0.00244 (0.806) |
0.00203 (0.695) |
0.000907 (0.349) |
| 12q gain | 179 (18%) | 828 |
0.00262 (0.85) |
0.000961 (0.366) |
2.78e-21 (2.54e-18) |
4.4e-09 (3.15e-06) |
0.223 (1.00) |
0.371 (1.00) |
2.43e-07 (0.000153) |
1.36e-08 (9.43e-06) |
0.0823 (1.00) |
0.019 (1.00) |
0.0837 (1.00) |
0.0581 (1.00) |
| 14q gain | 139 (14%) | 868 |
0.00235 (0.787) |
0.0797 (1.00) |
1.64e-09 (1.2e-06) |
0.0118 (1.00) |
0.4 (1.00) |
0.194 (1.00) |
0.000346 (0.149) |
0.000179 (0.0841) |
0.000341 (0.148) |
0.649 (1.00) |
0.0177 (1.00) |
0.147 (1.00) |
| 7q loss | 113 (11%) | 894 |
0.0448 (1.00) |
0.0113 (1.00) |
1.31e-05 (0.00722) |
0.189 (1.00) |
0.697 (1.00) |
0.797 (1.00) |
0.00315 (0.991) |
0.000155 (0.0732) |
0.000198 (0.0915) |
7.11e-05 (0.0359) |
0.0019 (0.662) |
0.00245 (0.806) |
| 1q gain | 655 (65%) | 352 |
0.000292 (0.129) |
0.892 (1.00) |
4.04e-09 (2.9e-06) |
1.49e-07 (9.48e-05) |
0.727 (1.00) |
0.353 (1.00) |
0.966 (1.00) |
0.84 (1.00) |
0.51 (1.00) |
0.00105 (0.398) |
0.786 (1.00) |
0.564 (1.00) |
| 11p gain | 129 (13%) | 878 |
0.71 (1.00) |
0.906 (1.00) |
3.38e-07 (0.000211) |
0.00581 (1.00) |
1 (1.00) |
0.495 (1.00) |
0.00852 (1.00) |
0.00782 (1.00) |
0.000652 (0.262) |
0.00122 (0.449) |
0.000537 (0.219) |
0.000425 (0.18) |
| 6p loss | 173 (17%) | 834 |
0.0662 (1.00) |
0.00226 (0.76) |
6.69e-11 (5.18e-08) |
0.000475 (0.197) |
0.636 (1.00) |
0.0619 (1.00) |
0.00131 (0.479) |
0.000101 (0.0495) |
0.196 (1.00) |
0.00113 (0.421) |
0.0512 (1.00) |
0.12 (1.00) |
| 10p loss | 162 (16%) | 845 |
0.274 (1.00) |
0.076 (1.00) |
1.28e-05 (0.00712) |
0.000502 (0.207) |
0.258 (1.00) |
0.42 (1.00) |
0.000256 (0.115) |
0.00198 (0.682) |
0.19 (1.00) |
0.00222 (0.751) |
0.144 (1.00) |
0.304 (1.00) |
| 16p loss | 156 (15%) | 851 |
0.167 (1.00) |
0.165 (1.00) |
0.000206 (0.0946) |
0.0252 (1.00) |
0.0125 (1.00) |
0.044 (1.00) |
0.0085 (1.00) |
0.00866 (1.00) |
0.000177 (0.0833) |
0.0018 (0.633) |
0.000129 (0.0617) |
0.0193 (1.00) |
| 18p loss | 302 (30%) | 705 |
0.000251 (0.112) |
0.402 (1.00) |
2.9e-13 (2.4e-10) |
3.78e-07 (0.000235) |
0.217 (1.00) |
0.777 (1.00) |
0.00348 (1.00) |
0.0235 (1.00) |
0.00311 (0.986) |
0.005 (1.00) |
0.000747 (0.295) |
0.233 (1.00) |
| 22q loss | 454 (45%) | 553 |
0.0542 (1.00) |
0.00276 (0.889) |
3.17e-11 (2.49e-08) |
1.29e-05 (0.00715) |
0.0178 (1.00) |
0.00112 (0.417) |
3.65e-05 (0.0191) |
0.000634 (0.256) |
0.0523 (1.00) |
0.0886 (1.00) |
0.434 (1.00) |
0.103 (1.00) |
| 4q gain | 68 (7%) | 939 |
2.77e-06 (0.00162) |
0.00182 (0.637) |
2.57e-12 (2.05e-09) |
0.00199 (0.686) |
0.104 (1.00) |
0.0199 (1.00) |
0.0178 (1.00) |
0.00283 (0.908) |
0.3 (1.00) |
0.00109 (0.409) |
0.66 (1.00) |
0.141 (1.00) |
| 7p gain | 290 (29%) | 717 |
0.00397 (1.00) |
0.12 (1.00) |
3.18e-09 (2.3e-06) |
0.00809 (1.00) |
0.584 (1.00) |
0.17 (1.00) |
0.0026 (0.848) |
5.79e-05 (0.0297) |
0.125 (1.00) |
0.058 (1.00) |
0.208 (1.00) |
0.535 (1.00) |
| 5p gain | 291 (29%) | 716 |
0.0131 (1.00) |
0.855 (1.00) |
7.46e-18 (6.65e-15) |
0.0632 (1.00) |
0.657 (1.00) |
0.16 (1.00) |
0.833 (1.00) |
0.0613 (1.00) |
0.392 (1.00) |
0.672 (1.00) |
0.0402 (1.00) |
0.31 (1.00) |
| 8p gain | 270 (27%) | 737 |
0.212 (1.00) |
0.198 (1.00) |
6.11e-08 (4.05e-05) |
0.0043 (1.00) |
0.611 (1.00) |
0.243 (1.00) |
0.039 (1.00) |
0.00192 (0.667) |
0.14 (1.00) |
0.0425 (1.00) |
0.00466 (1.00) |
0.0709 (1.00) |
| 9q gain | 112 (11%) | 895 |
0.166 (1.00) |
0.18 (1.00) |
7.99e-12 (6.35e-09) |
0.0997 (1.00) |
0.944 (1.00) |
0.182 (1.00) |
0.0147 (1.00) |
0.0196 (1.00) |
0.124 (1.00) |
0.19 (1.00) |
0.0204 (1.00) |
0.0676 (1.00) |
| 17p gain | 104 (10%) | 903 |
0.059 (1.00) |
0.236 (1.00) |
0.000111 (0.054) |
0.00924 (1.00) |
0.671 (1.00) |
0.648 (1.00) |
0.0651 (1.00) |
0.105 (1.00) |
0.323 (1.00) |
0.0104 (1.00) |
0.631 (1.00) |
0.464 (1.00) |
| 21q loss | 166 (16%) | 841 |
0.0329 (1.00) |
0.0528 (1.00) |
1.38e-12 (1.11e-09) |
0.000635 (0.256) |
0.772 (1.00) |
0.972 (1.00) |
0.0332 (1.00) |
0.00162 (0.579) |
0.00218 (0.74) |
0.0227 (1.00) |
0.0273 (1.00) |
0.0718 (1.00) |
| 15q gain | 85 (8%) | 922 |
0.0863 (1.00) |
0.309 (1.00) |
0.00111 (0.415) |
0.0393 (1.00) |
0.444 (1.00) |
0.238 (1.00) |
0.00536 (1.00) |
0.000759 (0.298) |
0.37 (1.00) |
0.0115 (1.00) |
0.49 (1.00) |
0.454 (1.00) |
| 16q gain | 126 (13%) | 881 |
0.571 (1.00) |
0.172 (1.00) |
0.00496 (1.00) |
0.00664 (1.00) |
0.356 (1.00) |
0.564 (1.00) |
0.0698 (1.00) |
0.0359 (1.00) |
0.00332 (1.00) |
0.000872 (0.339) |
0.015 (1.00) |
0.12 (1.00) |
| 1q loss | 51 (5%) | 956 |
0.0205 (1.00) |
0.00214 (0.729) |
0.000692 (0.277) |
0.059 (1.00) |
0.262 (1.00) |
0.422 (1.00) |
0.0166 (1.00) |
0.0375 (1.00) |
0.0172 (1.00) |
0.0169 (1.00) |
0.769 (1.00) |
0.727 (1.00) |
| 8q loss | 86 (9%) | 921 |
0.0486 (1.00) |
0.19 (1.00) |
0.00241 (0.796) |
0.191 (1.00) |
0.774 (1.00) |
0.401 (1.00) |
0.0072 (1.00) |
0.205 (1.00) |
0.398 (1.00) |
0.657 (1.00) |
0.297 (1.00) |
0.733 (1.00) |
P value = 3.72e-09 (Chi-square test), Q value = 2.7e-06
Table S1. Gene #1: '1p gain' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 1P GAIN MUTATED | 2 | 3 | 17 | 40 | 7 | 18 | 6 | 5 |
| 1P GAIN WILD-TYPE | 19 | 33 | 102 | 56 | 102 | 54 | 14 | 35 |
Figure S1. Get High-res Image Gene #1: '1p gain' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 9.02e-10 (Fisher's exact test), Q value = 6.6e-07
Table S2. Gene #1: '1p gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 1P GAIN MUTATED | 15 | 50 | 33 |
| 1P GAIN WILD-TYPE | 107 | 75 | 233 |
Figure S2. Get High-res Image Gene #1: '1p gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 4.68e-17 (Chi-square test), Q value = 4.1e-14
Table S3. Gene #1: '1p gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 1P GAIN MUTATED | 44 | 38 | 9 | 92 | 8 |
| 1P GAIN WILD-TYPE | 327 | 220 | 88 | 144 | 37 |
Figure S3. Get High-res Image Gene #1: '1p gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 2.32e-08 (Chi-square test), Q value = 1.6e-05
Table S4. Gene #1: '1p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 1P GAIN MUTATED | 44 | 15 | 16 | 23 | 5 | 29 |
| 1P GAIN WILD-TYPE | 72 | 140 | 92 | 116 | 50 | 83 |
Figure S4. Get High-res Image Gene #1: '1p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 1.83e-06 (Fisher's exact test), Q value = 0.0011
Table S5. Gene #1: '1p gain' versus Molecular Subtype #5: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 147 | 133 | 117 |
| 1P GAIN MUTATED | 50 | 19 | 12 |
| 1P GAIN WILD-TYPE | 97 | 114 | 105 |
Figure S5. Get High-res Image Gene #1: '1p gain' versus Molecular Subtype #5: 'RPPA_CNMF'
P value = 1.41e-05 (Fisher's exact test), Q value = 0.0078
Table S6. Gene #1: '1p gain' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 161 | 110 | 126 |
| 1P GAIN MUTATED | 31 | 9 | 41 |
| 1P GAIN WILD-TYPE | 130 | 101 | 85 |
Figure S6. Get High-res Image Gene #1: '1p gain' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
P value = 2.31e-18 (Fisher's exact test), Q value = 2.1e-15
Table S7. Gene #1: '1p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 1P GAIN MUTATED | 104 | 21 | 65 |
| 1P GAIN WILD-TYPE | 169 | 165 | 477 |
Figure S7. Get High-res Image Gene #1: '1p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 1.26e-15 (Fisher's exact test), Q value = 1.1e-12
Table S8. Gene #1: '1p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 1P GAIN MUTATED | 90 | 61 | 39 |
| 1P GAIN WILD-TYPE | 143 | 378 | 290 |
Figure S8. Get High-res Image Gene #1: '1p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 4.23e-11 (Fisher's exact test), Q value = 3.3e-08
Table S9. Gene #1: '1p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 1P GAIN MUTATED | 50 | 39 | 95 |
| 1P GAIN WILD-TYPE | 348 | 248 | 197 |
Figure S9. Get High-res Image Gene #1: '1p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 1.1e-16 (Fisher's exact test), Q value = 9.6e-14
Table S10. Gene #1: '1p gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 1P GAIN MUTATED | 94 | 47 | 43 |
| 1P GAIN WILD-TYPE | 158 | 252 | 383 |
Figure S10. Get High-res Image Gene #1: '1p gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 1.05e-09 (Fisher's exact test), Q value = 7.7e-07
Table S11. Gene #1: '1p gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 1P GAIN MUTATED | 34 | 24 | 68 |
| 1P GAIN WILD-TYPE | 216 | 195 | 130 |
Figure S11. Get High-res Image Gene #1: '1p gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 4.73e-09 (Fisher's exact test), Q value = 3.4e-06
Table S12. Gene #1: '1p gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 1P GAIN MUTATED | 54 | 19 | 53 |
| 1P GAIN WILD-TYPE | 91 | 158 | 292 |
Figure S12. Get High-res Image Gene #1: '1p gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.000292 (Chi-square test), Q value = 0.13
Table S13. Gene #2: '1q gain' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 1Q GAIN MUTATED | 14 | 19 | 58 | 66 | 86 | 50 | 12 | 28 |
| 1Q GAIN WILD-TYPE | 7 | 17 | 61 | 30 | 23 | 22 | 8 | 12 |
Figure S13. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 4.04e-09 (Chi-square test), Q value = 2.9e-06
Table S14. Gene #2: '1q gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 1Q GAIN MUTATED | 218 | 167 | 92 | 151 | 27 |
| 1Q GAIN WILD-TYPE | 153 | 91 | 5 | 85 | 18 |
Figure S14. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 1.49e-07 (Chi-square test), Q value = 9.5e-05
Table S15. Gene #2: '1q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 1Q GAIN MUTATED | 76 | 125 | 81 | 73 | 30 | 60 |
| 1Q GAIN WILD-TYPE | 40 | 30 | 27 | 66 | 25 | 52 |
Figure S15. Get High-res Image Gene #2: '1q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 9.24e-15 (Chi-square test), Q value = 7.8e-12
Table S16. Gene #3: '2p gain' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 2P GAIN MUTATED | 1 | 1 | 6 | 30 | 1 | 20 | 1 | 0 |
| 2P GAIN WILD-TYPE | 20 | 35 | 113 | 66 | 108 | 52 | 19 | 40 |
Figure S16. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 1.41e-14 (Fisher's exact test), Q value = 1.2e-11
Table S17. Gene #3: '2p gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 2P GAIN MUTATED | 1 | 40 | 19 |
| 2P GAIN WILD-TYPE | 121 | 85 | 247 |
Figure S17. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 9.97e-18 (Chi-square test), Q value = 8.9e-15
Table S18. Gene #3: '2p gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 2P GAIN MUTATED | 15 | 21 | 8 | 65 | 4 |
| 2P GAIN WILD-TYPE | 356 | 237 | 89 | 171 | 41 |
Figure S18. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 2.72e-13 (Chi-square test), Q value = 2.3e-10
Table S19. Gene #3: '2p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 2P GAIN MUTATED | 36 | 2 | 8 | 13 | 3 | 11 |
| 2P GAIN WILD-TYPE | 80 | 153 | 100 | 126 | 52 | 101 |
Figure S19. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 1.55e-10 (Fisher's exact test), Q value = 1.2e-07
Table S20. Gene #3: '2p gain' versus Molecular Subtype #5: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 147 | 133 | 117 |
| 2P GAIN MUTATED | 39 | 2 | 9 |
| 2P GAIN WILD-TYPE | 108 | 131 | 108 |
Figure S20. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #5: 'RPPA_CNMF'
P value = 3.16e-10 (Fisher's exact test), Q value = 2.4e-07
Table S21. Gene #3: '2p gain' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 161 | 110 | 126 |
| 2P GAIN MUTATED | 9 | 4 | 37 |
| 2P GAIN WILD-TYPE | 152 | 106 | 89 |
Figure S21. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
P value = 2.75e-29 (Fisher's exact test), Q value = 2.6e-26
Table S22. Gene #3: '2p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 2P GAIN MUTATED | 83 | 1 | 28 |
| 2P GAIN WILD-TYPE | 190 | 185 | 514 |
Figure S22. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 1.36e-27 (Fisher's exact test), Q value = 1.3e-24
Table S23. Gene #3: '2p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 2P GAIN MUTATED | 74 | 33 | 5 |
| 2P GAIN WILD-TYPE | 159 | 406 | 324 |
Figure S23. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 7.91e-23 (Fisher's exact test), Q value = 7.3e-20
Table S24. Gene #3: '2p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 2P GAIN MUTATED | 22 | 7 | 79 |
| 2P GAIN WILD-TYPE | 376 | 280 | 213 |
Figure S24. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 1e-22 (Fisher's exact test), Q value = 9.3e-20
Table S25. Gene #3: '2p gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 2P GAIN MUTATED | 72 | 24 | 12 |
| 2P GAIN WILD-TYPE | 180 | 275 | 414 |
Figure S25. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 3.72e-22 (Fisher's exact test), Q value = 3.4e-19
Table S26. Gene #3: '2p gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 2P GAIN MUTATED | 10 | 5 | 62 |
| 2P GAIN WILD-TYPE | 240 | 214 | 136 |
Figure S26. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 3.08e-13 (Fisher's exact test), Q value = 2.5e-10
Table S27. Gene #3: '2p gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 2P GAIN MUTATED | 45 | 9 | 23 |
| 2P GAIN WILD-TYPE | 100 | 168 | 322 |
Figure S27. Get High-res Image Gene #3: '2p gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 2.56e-07 (Chi-square test), Q value = 0.00016
Table S28. Gene #4: '2q gain' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 2Q GAIN MUTATED | 1 | 1 | 5 | 17 | 1 | 14 | 0 | 0 |
| 2Q GAIN WILD-TYPE | 20 | 35 | 114 | 79 | 108 | 58 | 20 | 40 |
Figure S28. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 1.49e-07 (Fisher's exact test), Q value = 9.5e-05
Table S29. Gene #4: '2q gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 2Q GAIN MUTATED | 1 | 24 | 14 |
| 2Q GAIN WILD-TYPE | 121 | 101 | 252 |
Figure S29. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 1.63e-09 (Chi-square test), Q value = 1.2e-06
Table S30. Gene #4: '2q gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 2Q GAIN MUTATED | 10 | 13 | 7 | 39 | 1 |
| 2Q GAIN WILD-TYPE | 361 | 245 | 90 | 197 | 44 |
Figure S30. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 7.16e-08 (Chi-square test), Q value = 4.7e-05
Table S31. Gene #4: '2q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 2Q GAIN MUTATED | 21 | 2 | 7 | 5 | 1 | 4 |
| 2Q GAIN WILD-TYPE | 95 | 153 | 101 | 134 | 54 | 108 |
Figure S31. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 1.36e-06 (Fisher's exact test), Q value = 0.00081
Table S32. Gene #4: '2q gain' versus Molecular Subtype #5: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 147 | 133 | 117 |
| 2Q GAIN MUTATED | 25 | 2 | 4 |
| 2Q GAIN WILD-TYPE | 122 | 131 | 113 |
Figure S32. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #5: 'RPPA_CNMF'
P value = 1.88e-05 (Fisher's exact test), Q value = 0.01
Table S33. Gene #4: '2q gain' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 161 | 110 | 126 |
| 2Q GAIN MUTATED | 6 | 3 | 22 |
| 2Q GAIN WILD-TYPE | 155 | 107 | 104 |
Figure S33. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
P value = 1.74e-14 (Fisher's exact test), Q value = 1.5e-11
Table S34. Gene #4: '2q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 2Q GAIN MUTATED | 48 | 1 | 20 |
| 2Q GAIN WILD-TYPE | 225 | 185 | 522 |
Figure S34. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 4.97e-14 (Fisher's exact test), Q value = 4.2e-11
Table S35. Gene #4: '2q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 2Q GAIN MUTATED | 43 | 22 | 4 |
| 2Q GAIN WILD-TYPE | 190 | 417 | 325 |
Figure S35. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 1.33e-11 (Fisher's exact test), Q value = 1.1e-08
Table S36. Gene #4: '2q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 2Q GAIN MUTATED | 15 | 5 | 46 |
| 2Q GAIN WILD-TYPE | 383 | 282 | 246 |
Figure S36. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 1.28e-10 (Fisher's exact test), Q value = 9.8e-08
Table S37. Gene #4: '2q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 2Q GAIN MUTATED | 41 | 15 | 10 |
| 2Q GAIN WILD-TYPE | 211 | 284 | 416 |
Figure S37. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 5.16e-13 (Fisher's exact test), Q value = 4.2e-10
Table S38. Gene #4: '2q gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 2Q GAIN MUTATED | 7 | 4 | 40 |
| 2Q GAIN WILD-TYPE | 243 | 215 | 158 |
Figure S38. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 3.59e-07 (Fisher's exact test), Q value = 0.00022
Table S39. Gene #4: '2q gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 2Q GAIN MUTATED | 28 | 7 | 16 |
| 2Q GAIN WILD-TYPE | 117 | 170 | 329 |
Figure S39. Get High-res Image Gene #4: '2q gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1.02e-10 (Chi-square test), Q value = 7.9e-08
Table S40. Gene #5: '3p gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 3P GAIN MUTATED | 13 | 48 | 21 | 44 | 11 |
| 3P GAIN WILD-TYPE | 358 | 210 | 76 | 192 | 34 |
Figure S40. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 2.65e-05 (Chi-square test), Q value = 0.014
Table S41. Gene #5: '3p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 3P GAIN MUTATED | 28 | 9 | 13 | 18 | 3 | 7 |
| 3P GAIN WILD-TYPE | 88 | 146 | 95 | 121 | 52 | 105 |
Figure S41. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 1.82e-05 (Fisher's exact test), Q value = 0.0099
Table S42. Gene #5: '3p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 3P GAIN MUTATED | 49 | 8 | 79 |
| 3P GAIN WILD-TYPE | 224 | 178 | 463 |
Figure S42. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 3.84e-07 (Fisher's exact test), Q value = 0.00024
Table S43. Gene #5: '3p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 3P GAIN MUTATED | 45 | 72 | 19 |
| 3P GAIN WILD-TYPE | 188 | 367 | 310 |
Figure S43. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 0.000146 (Fisher's exact test), Q value = 0.07
Table S44. Gene #5: '3p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 3P GAIN MUTATED | 50 | 23 | 58 |
| 3P GAIN WILD-TYPE | 348 | 264 | 234 |
Figure S44. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 0.000168 (Fisher's exact test), Q value = 0.079
Table S45. Gene #5: '3p gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 3P GAIN MUTATED | 51 | 42 | 38 |
| 3P GAIN WILD-TYPE | 201 | 257 | 388 |
Figure S45. Get High-res Image Gene #5: '3p gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 3.37e-06 (Fisher's exact test), Q value = 0.002
Table S46. Gene #6: '3q gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 3Q GAIN MUTATED | 9 | 39 | 65 |
| 3Q GAIN WILD-TYPE | 113 | 86 | 201 |
Figure S46. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 1.32e-17 (Chi-square test), Q value = 1.2e-14
Table S47. Gene #6: '3q gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 3Q GAIN MUTATED | 21 | 63 | 25 | 82 | 11 |
| 3Q GAIN WILD-TYPE | 350 | 195 | 72 | 154 | 34 |
Figure S47. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 1.03e-10 (Chi-square test), Q value = 7.9e-08
Table S48. Gene #6: '3q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 3Q GAIN MUTATED | 45 | 10 | 20 | 26 | 7 | 11 |
| 3Q GAIN WILD-TYPE | 71 | 145 | 88 | 113 | 48 | 101 |
Figure S48. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 8.53e-12 (Fisher's exact test), Q value = 6.8e-09
Table S49. Gene #6: '3q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 3Q GAIN MUTATED | 87 | 11 | 103 |
| 3Q GAIN WILD-TYPE | 186 | 175 | 439 |
Figure S49. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 1.45e-12 (Fisher's exact test), Q value = 1.2e-09
Table S50. Gene #6: '3q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 3Q GAIN MUTATED | 78 | 94 | 29 |
| 3Q GAIN WILD-TYPE | 155 | 345 | 300 |
Figure S50. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 8.42e-13 (Fisher's exact test), Q value = 6.9e-10
Table S51. Gene #6: '3q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 3Q GAIN MUTATED | 66 | 29 | 100 |
| 3Q GAIN WILD-TYPE | 332 | 258 | 192 |
Figure S51. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 3.7e-11 (Fisher's exact test), Q value = 2.9e-08
Table S52. Gene #6: '3q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 3Q GAIN MUTATED | 86 | 59 | 50 |
| 3Q GAIN WILD-TYPE | 166 | 240 | 376 |
Figure S52. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 2e-10 (Fisher's exact test), Q value = 1.5e-07
Table S53. Gene #6: '3q gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 3Q GAIN MUTATED | 34 | 24 | 70 |
| 3Q GAIN WILD-TYPE | 216 | 195 | 128 |
Figure S53. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 9.31e-11 (Fisher's exact test), Q value = 7.2e-08
Table S54. Gene #6: '3q gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 3Q GAIN MUTATED | 58 | 21 | 49 |
| 3Q GAIN WILD-TYPE | 87 | 156 | 296 |
Figure S54. Get High-res Image Gene #6: '3q gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.000105 (Chi-square test), Q value = 0.051
Table S55. Gene #7: '4p gain' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 4P GAIN MUTATED | 1 | 1 | 21 | 3 | 3 | 4 | 0 | 2 |
| 4P GAIN WILD-TYPE | 20 | 35 | 98 | 93 | 106 | 68 | 20 | 38 |
Figure S55. Get High-res Image Gene #7: '4p gain' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 4.75e-13 (Chi-square test), Q value = 3.9e-10
Table S56. Gene #7: '4p gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 4P GAIN MUTATED | 6 | 46 | 3 | 14 | 4 |
| 4P GAIN WILD-TYPE | 365 | 212 | 94 | 222 | 41 |
Figure S56. Get High-res Image Gene #7: '4p gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 0.00055 (Chi-square test), Q value = 0.22
Table S57. Gene #7: '4p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 4P GAIN MUTATED | 7 | 6 | 9 | 22 | 3 | 3 |
| 4P GAIN WILD-TYPE | 109 | 149 | 99 | 117 | 52 | 109 |
Figure S57. Get High-res Image Gene #7: '4p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 0.00035 (Fisher's exact test), Q value = 0.15
Table S58. Gene #7: '4p gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 4P GAIN MUTATED | 20 | 34 | 16 |
| 4P GAIN WILD-TYPE | 232 | 265 | 410 |
Figure S58. Get High-res Image Gene #7: '4p gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 2.77e-06 (Chi-square test), Q value = 0.0016
Table S59. Gene #8: '4q gain' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 4Q GAIN MUTATED | 1 | 1 | 22 | 2 | 3 | 2 | 0 | 2 |
| 4Q GAIN WILD-TYPE | 20 | 35 | 97 | 94 | 106 | 70 | 20 | 38 |
Figure S59. Get High-res Image Gene #8: '4q gain' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 2.57e-12 (Chi-square test), Q value = 2.1e-09
Table S60. Gene #8: '4q gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 4Q GAIN MUTATED | 6 | 42 | 2 | 12 | 6 |
| 4Q GAIN WILD-TYPE | 365 | 216 | 95 | 224 | 39 |
Figure S60. Get High-res Image Gene #8: '4q gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 7.46e-18 (Chi-square test), Q value = 6.6e-15
Table S61. Gene #9: '5p gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 5P GAIN MUTATED | 52 | 107 | 51 | 67 | 14 |
| 5P GAIN WILD-TYPE | 319 | 151 | 46 | 169 | 31 |
Figure S61. Get High-res Image Gene #9: '5p gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 3.3e-25 (Chi-square test), Q value = 3.1e-22
Table S62. Gene #10: '5q gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 5Q GAIN MUTATED | 42 | 81 | 48 | 15 | 10 |
| 5Q GAIN WILD-TYPE | 329 | 177 | 49 | 221 | 35 |
Figure S62. Get High-res Image Gene #10: '5q gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 9.87e-05 (Fisher's exact test), Q value = 0.048
Table S63. Gene #10: '5q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 5Q GAIN MUTATED | 30 | 40 | 124 |
| 5Q GAIN WILD-TYPE | 243 | 146 | 418 |
Figure S63. Get High-res Image Gene #10: '5q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 6.76e-07 (Fisher's exact test), Q value = 0.00041
Table S64. Gene #10: '5q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 5Q GAIN MUTATED | 20 | 109 | 65 |
| 5Q GAIN WILD-TYPE | 213 | 330 | 264 |
Figure S64. Get High-res Image Gene #10: '5q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 0.000183 (Fisher's exact test), Q value = 0.086
Table S65. Gene #10: '5q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 5Q GAIN MUTATED | 93 | 62 | 34 |
| 5Q GAIN WILD-TYPE | 305 | 225 | 258 |
Figure S65. Get High-res Image Gene #10: '5q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 5.32e-07 (Chi-square test), Q value = 0.00033
Table S66. Gene #11: '6p gain' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 6P GAIN MUTATED | 2 | 2 | 18 | 36 | 13 | 19 | 7 | 2 |
| 6P GAIN WILD-TYPE | 19 | 34 | 101 | 60 | 96 | 53 | 13 | 38 |
Figure S66. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 4.84e-06 (Fisher's exact test), Q value = 0.0028
Table S67. Gene #11: '6p gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 6P GAIN MUTATED | 10 | 41 | 48 |
| 6P GAIN WILD-TYPE | 112 | 84 | 218 |
Figure S67. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 1.21e-33 (Chi-square test), Q value = 1.1e-30
Table S68. Gene #11: '6p gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 6P GAIN MUTATED | 15 | 41 | 23 | 107 | 11 |
| 6P GAIN WILD-TYPE | 356 | 217 | 74 | 129 | 34 |
Figure S68. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 1.25e-17 (Chi-square test), Q value = 1.1e-14
Table S69. Gene #11: '6p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 6P GAIN MUTATED | 54 | 10 | 25 | 29 | 2 | 11 |
| 6P GAIN WILD-TYPE | 62 | 145 | 83 | 110 | 53 | 101 |
Figure S69. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 5.5e-05 (Fisher's exact test), Q value = 0.028
Table S70. Gene #11: '6p gain' versus Molecular Subtype #5: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 147 | 133 | 117 |
| 6P GAIN MUTATED | 46 | 19 | 13 |
| 6P GAIN WILD-TYPE | 101 | 114 | 104 |
Figure S70. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #5: 'RPPA_CNMF'
P value = 1.95e-18 (Fisher's exact test), Q value = 1.8e-15
Table S71. Gene #11: '6p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 6P GAIN MUTATED | 100 | 9 | 86 |
| 6P GAIN WILD-TYPE | 173 | 177 | 456 |
Figure S71. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 1.57e-19 (Fisher's exact test), Q value = 1.4e-16
Table S72. Gene #11: '6p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 6P GAIN MUTATED | 90 | 82 | 23 |
| 6P GAIN WILD-TYPE | 143 | 357 | 306 |
Figure S72. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 4.34e-18 (Fisher's exact test), Q value = 3.9e-15
Table S73. Gene #11: '6p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 6P GAIN MUTATED | 59 | 22 | 105 |
| 6P GAIN WILD-TYPE | 339 | 265 | 187 |
Figure S73. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 6.68e-21 (Fisher's exact test), Q value = 6.1e-18
Table S74. Gene #11: '6p gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 6P GAIN MUTATED | 98 | 53 | 35 |
| 6P GAIN WILD-TYPE | 154 | 246 | 391 |
Figure S74. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 3.04e-15 (Fisher's exact test), Q value = 2.6e-12
Table S75. Gene #11: '6p gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 6P GAIN MUTATED | 30 | 19 | 76 |
| 6P GAIN WILD-TYPE | 220 | 200 | 122 |
Figure S75. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 1e-10 (Fisher's exact test), Q value = 7.7e-08
Table S76. Gene #11: '6p gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 6P GAIN MUTATED | 57 | 20 | 48 |
| 6P GAIN WILD-TYPE | 88 | 157 | 297 |
Figure S76. Get High-res Image Gene #11: '6p gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1.58e-07 (Chi-square test), Q value = 1e-04
Table S77. Gene #12: '6q gain' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 6Q GAIN MUTATED | 1 | 0 | 9 | 29 | 11 | 13 | 7 | 2 |
| 6Q GAIN WILD-TYPE | 20 | 36 | 110 | 67 | 98 | 59 | 13 | 38 |
Figure S77. Get High-res Image Gene #12: '6q gain' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 1.45e-05 (Fisher's exact test), Q value = 0.008
Table S78. Gene #12: '6q gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 6Q GAIN MUTATED | 7 | 33 | 32 |
| 6Q GAIN WILD-TYPE | 115 | 92 | 234 |
Figure S78. Get High-res Image Gene #12: '6q gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 2.21e-32 (Chi-square test), Q value = 2.1e-29
Table S79. Gene #12: '6q gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 6Q GAIN MUTATED | 9 | 22 | 16 | 88 | 6 |
| 6Q GAIN WILD-TYPE | 362 | 236 | 81 | 148 | 39 |
Figure S79. Get High-res Image Gene #12: '6q gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 2.14e-11 (Chi-square test), Q value = 1.7e-08
Table S80. Gene #12: '6q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 6Q GAIN MUTATED | 38 | 5 | 16 | 17 | 2 | 11 |
| 6Q GAIN WILD-TYPE | 78 | 150 | 92 | 122 | 53 | 101 |
Figure S80. Get High-res Image Gene #12: '6q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 3.39e-06 (Fisher's exact test), Q value = 0.002
Table S81. Gene #12: '6q gain' versus Molecular Subtype #5: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 147 | 133 | 117 |
| 6Q GAIN MUTATED | 39 | 10 | 9 |
| 6Q GAIN WILD-TYPE | 108 | 123 | 108 |
Figure S81. Get High-res Image Gene #12: '6q gain' versus Molecular Subtype #5: 'RPPA_CNMF'
P value = 5.32e-15 (Fisher's exact test), Q value = 4.6e-12
Table S82. Gene #12: '6q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 6Q GAIN MUTATED | 77 | 7 | 55 |
| 6Q GAIN WILD-TYPE | 196 | 179 | 487 |
Figure S82. Get High-res Image Gene #12: '6q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 1.01e-13 (Fisher's exact test), Q value = 8.4e-11
Table S83. Gene #12: '6q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 6Q GAIN MUTATED | 67 | 54 | 18 |
| 6Q GAIN WILD-TYPE | 166 | 385 | 311 |
Figure S83. Get High-res Image Gene #12: '6q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 6.42e-17 (Fisher's exact test), Q value = 5.6e-14
Table S84. Gene #12: '6q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 6Q GAIN MUTATED | 36 | 15 | 84 |
| 6Q GAIN WILD-TYPE | 362 | 272 | 208 |
Figure S84. Get High-res Image Gene #12: '6q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 2.6e-16 (Fisher's exact test), Q value = 2.3e-13
Table S85. Gene #12: '6q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 6Q GAIN MUTATED | 75 | 35 | 25 |
| 6Q GAIN WILD-TYPE | 177 | 264 | 401 |
Figure S85. Get High-res Image Gene #12: '6q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 8.99e-14 (Fisher's exact test), Q value = 7.5e-11
Table S86. Gene #12: '6q gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 6Q GAIN MUTATED | 23 | 12 | 62 |
| 6Q GAIN WILD-TYPE | 227 | 207 | 136 |
Figure S86. Get High-res Image Gene #12: '6q gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 1.92e-10 (Fisher's exact test), Q value = 1.5e-07
Table S87. Gene #12: '6q gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 6Q GAIN MUTATED | 48 | 14 | 35 |
| 6Q GAIN WILD-TYPE | 97 | 163 | 310 |
Figure S87. Get High-res Image Gene #12: '6q gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 3.18e-09 (Chi-square test), Q value = 2.3e-06
Table S88. Gene #13: '7p gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 7P GAIN MUTATED | 70 | 74 | 49 | 84 | 13 |
| 7P GAIN WILD-TYPE | 301 | 184 | 48 | 152 | 32 |
Figure S88. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 5.79e-05 (Fisher's exact test), Q value = 0.03
Table S89. Gene #13: '7p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 7P GAIN MUTATED | 87 | 132 | 68 |
| 7P GAIN WILD-TYPE | 146 | 307 | 261 |
Figure S89. Get High-res Image Gene #13: '7p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 7.96e-09 (Chi-square test), Q value = 5.6e-06
Table S90. Gene #14: '7q gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 7Q GAIN MUTATED | 59 | 58 | 43 | 76 | 11 |
| 7Q GAIN WILD-TYPE | 312 | 200 | 54 | 160 | 34 |
Figure S90. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 0.000455 (Chi-square test), Q value = 0.19
Table S91. Gene #14: '7q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 7Q GAIN MUTATED | 46 | 30 | 27 | 33 | 9 | 19 |
| 7Q GAIN WILD-TYPE | 70 | 125 | 81 | 106 | 46 | 93 |
Figure S91. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 6.8e-05 (Fisher's exact test), Q value = 0.035
Table S92. Gene #14: '7q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 7Q GAIN MUTATED | 93 | 34 | 117 |
| 7Q GAIN WILD-TYPE | 180 | 152 | 425 |
Figure S92. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 8.84e-08 (Fisher's exact test), Q value = 5.8e-05
Table S93. Gene #14: '7q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 7Q GAIN MUTATED | 86 | 106 | 52 |
| 7Q GAIN WILD-TYPE | 147 | 333 | 277 |
Figure S93. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 1.25e-05 (Fisher's exact test), Q value = 0.007
Table S94. Gene #14: '7q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 7Q GAIN MUTATED | 86 | 50 | 99 |
| 7Q GAIN WILD-TYPE | 166 | 249 | 327 |
Figure S94. Get High-res Image Gene #14: '7q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 6.11e-08 (Chi-square test), Q value = 4e-05
Table S95. Gene #15: '8p gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 8P GAIN MUTATED | 71 | 68 | 39 | 67 | 25 |
| 8P GAIN WILD-TYPE | 300 | 190 | 58 | 169 | 20 |
Figure S95. Get High-res Image Gene #15: '8p gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 6.86e-05 (Chi-square test), Q value = 0.035
Table S96. Gene #16: '8q gain' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 8Q GAIN MUTATED | 14 | 13 | 73 | 62 | 44 | 35 | 15 | 14 |
| 8Q GAIN WILD-TYPE | 7 | 23 | 46 | 34 | 65 | 37 | 5 | 26 |
Figure S96. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 2.64e-22 (Chi-square test), Q value = 2.4e-19
Table S97. Gene #16: '8q gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 8Q GAIN MUTATED | 112 | 153 | 42 | 150 | 38 |
| 8Q GAIN WILD-TYPE | 259 | 105 | 55 | 86 | 7 |
Figure S97. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 3.88e-13 (Chi-square test), Q value = 3.2e-10
Table S98. Gene #16: '8q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 8Q GAIN MUTATED | 80 | 38 | 52 | 83 | 19 | 48 |
| 8Q GAIN WILD-TYPE | 36 | 117 | 56 | 56 | 36 | 64 |
Figure S98. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 5.01e-07 (Fisher's exact test), Q value = 0.00031
Table S99. Gene #16: '8q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 8Q GAIN MUTATED | 162 | 63 | 266 |
| 8Q GAIN WILD-TYPE | 111 | 123 | 276 |
Figure S99. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 2.87e-09 (Fisher's exact test), Q value = 2.1e-06
Table S100. Gene #16: '8q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 8Q GAIN MUTATED | 143 | 230 | 118 |
| 8Q GAIN WILD-TYPE | 90 | 209 | 211 |
Figure S100. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 4.48e-11 (Fisher's exact test), Q value = 3.5e-08
Table S101. Gene #16: '8q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 8Q GAIN MUTATED | 196 | 99 | 184 |
| 8Q GAIN WILD-TYPE | 202 | 188 | 108 |
Figure S101. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 1.35e-10 (Fisher's exact test), Q value = 1e-07
Table S102. Gene #16: '8q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 8Q GAIN MUTATED | 163 | 153 | 163 |
| 8Q GAIN WILD-TYPE | 89 | 146 | 263 |
Figure S102. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 3.33e-11 (Fisher's exact test), Q value = 2.6e-08
Table S103. Gene #16: '8q gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 8Q GAIN MUTATED | 115 | 70 | 130 |
| 8Q GAIN WILD-TYPE | 135 | 149 | 68 |
Figure S103. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 1e-07 (Fisher's exact test), Q value = 6.5e-05
Table S104. Gene #16: '8q gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 8Q GAIN MUTATED | 96 | 62 | 157 |
| 8Q GAIN WILD-TYPE | 49 | 115 | 188 |
Figure S104. Get High-res Image Gene #16: '8q gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 8.81e-10 (Chi-square test), Q value = 6.5e-07
Table S105. Gene #17: '9p gain' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 9P GAIN MUTATED | 1 | 2 | 3 | 33 | 14 | 9 | 0 | 5 |
| 9P GAIN WILD-TYPE | 20 | 34 | 116 | 63 | 95 | 63 | 20 | 35 |
Figure S105. Get High-res Image Gene #17: '9p gain' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 1.27e-07 (Fisher's exact test), Q value = 8.2e-05
Table S106. Gene #17: '9p gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 9P GAIN MUTATED | 11 | 36 | 20 |
| 9P GAIN WILD-TYPE | 111 | 89 | 246 |
Figure S106. Get High-res Image Gene #17: '9p gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 1.03e-17 (Chi-square test), Q value = 9.2e-15
Table S107. Gene #17: '9p gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 9P GAIN MUTATED | 22 | 13 | 30 | 57 | 8 |
| 9P GAIN WILD-TYPE | 349 | 245 | 67 | 179 | 37 |
Figure S107. Get High-res Image Gene #17: '9p gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 4.54e-06 (Chi-square test), Q value = 0.0026
Table S108. Gene #17: '9p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 9P GAIN MUTATED | 32 | 17 | 10 | 12 | 2 | 11 |
| 9P GAIN WILD-TYPE | 84 | 138 | 98 | 127 | 53 | 101 |
Figure S108. Get High-res Image Gene #17: '9p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 3.85e-06 (Fisher's exact test), Q value = 0.0022
Table S109. Gene #17: '9p gain' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 161 | 110 | 126 |
| 9P GAIN MUTATED | 10 | 10 | 33 |
| 9P GAIN WILD-TYPE | 151 | 100 | 93 |
Figure S109. Get High-res Image Gene #17: '9p gain' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
P value = 2.26e-08 (Fisher's exact test), Q value = 1.5e-05
Table S110. Gene #17: '9p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 9P GAIN MUTATED | 65 | 16 | 49 |
| 9P GAIN WILD-TYPE | 208 | 170 | 493 |
Figure S110. Get High-res Image Gene #17: '9p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 3.2e-09 (Fisher's exact test), Q value = 2.3e-06
Table S111. Gene #17: '9p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 9P GAIN MUTATED | 60 | 43 | 27 |
| 9P GAIN WILD-TYPE | 173 | 396 | 302 |
Figure S111. Get High-res Image Gene #17: '9p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 4.46e-06 (Fisher's exact test), Q value = 0.0026
Table S112. Gene #17: '9p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 9P GAIN MUTATED | 37 | 26 | 62 |
| 9P GAIN WILD-TYPE | 361 | 261 | 230 |
Figure S112. Get High-res Image Gene #17: '9p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 3.31e-08 (Fisher's exact test), Q value = 2.2e-05
Table S113. Gene #17: '9p gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 9P GAIN MUTATED | 59 | 20 | 46 |
| 9P GAIN WILD-TYPE | 193 | 279 | 380 |
Figure S113. Get High-res Image Gene #17: '9p gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 0.000536 (Fisher's exact test), Q value = 0.22
Table S114. Gene #17: '9p gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 9P GAIN MUTATED | 31 | 17 | 41 |
| 9P GAIN WILD-TYPE | 219 | 202 | 157 |
Figure S114. Get High-res Image Gene #17: '9p gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 0.000248 (Fisher's exact test), Q value = 0.11
Table S115. Gene #17: '9p gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 9P GAIN MUTATED | 34 | 14 | 41 |
| 9P GAIN WILD-TYPE | 111 | 163 | 304 |
Figure S115. Get High-res Image Gene #17: '9p gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 7.99e-12 (Chi-square test), Q value = 6.4e-09
Table S116. Gene #18: '9q gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 9Q GAIN MUTATED | 23 | 17 | 30 | 37 | 5 |
| 9Q GAIN WILD-TYPE | 348 | 241 | 67 | 199 | 40 |
Figure S116. Get High-res Image Gene #18: '9q gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 1.8e-09 (Chi-square test), Q value = 1.3e-06
Table S117. Gene #19: '10p gain' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 10P GAIN MUTATED | 2 | 4 | 17 | 41 | 11 | 26 | 6 | 4 |
| 10P GAIN WILD-TYPE | 19 | 32 | 102 | 55 | 98 | 46 | 14 | 36 |
Figure S117. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 5.78e-08 (Fisher's exact test), Q value = 3.8e-05
Table S118. Gene #19: '10p gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 10P GAIN MUTATED | 16 | 51 | 44 |
| 10P GAIN WILD-TYPE | 106 | 74 | 222 |
Figure S118. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 9.42e-27 (Chi-square test), Q value = 8.8e-24
Table S119. Gene #19: '10p gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 10P GAIN MUTATED | 22 | 47 | 18 | 102 | 8 |
| 10P GAIN WILD-TYPE | 349 | 211 | 79 | 134 | 37 |
Figure S119. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 3.63e-15 (Chi-square test), Q value = 3.1e-12
Table S120. Gene #19: '10p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 10P GAIN MUTATED | 52 | 9 | 19 | 25 | 3 | 18 |
| 10P GAIN WILD-TYPE | 64 | 146 | 89 | 114 | 52 | 94 |
Figure S120. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 2.4e-05 (Fisher's exact test), Q value = 0.013
Table S121. Gene #19: '10p gain' versus Molecular Subtype #5: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 147 | 133 | 117 |
| 10P GAIN MUTATED | 51 | 17 | 20 |
| 10P GAIN WILD-TYPE | 96 | 116 | 97 |
Figure S121. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #5: 'RPPA_CNMF'
P value = 2.46e-05 (Fisher's exact test), Q value = 0.013
Table S122. Gene #19: '10p gain' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 161 | 110 | 126 |
| 10P GAIN MUTATED | 23 | 19 | 46 |
| 10P GAIN WILD-TYPE | 138 | 91 | 80 |
Figure S122. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
P value = 9.79e-17 (Fisher's exact test), Q value = 8.6e-14
Table S123. Gene #19: '10p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 10P GAIN MUTATED | 102 | 15 | 80 |
| 10P GAIN WILD-TYPE | 171 | 171 | 462 |
Figure S123. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 8.79e-17 (Fisher's exact test), Q value = 7.7e-14
Table S124. Gene #19: '10p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 10P GAIN MUTATED | 92 | 72 | 33 |
| 10P GAIN WILD-TYPE | 141 | 367 | 296 |
Figure S124. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 2.37e-15 (Fisher's exact test), Q value = 2e-12
Table S125. Gene #19: '10p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 10P GAIN MUTATED | 59 | 28 | 104 |
| 10P GAIN WILD-TYPE | 339 | 259 | 188 |
Figure S125. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 2.01e-17 (Fisher's exact test), Q value = 1.8e-14
Table S126. Gene #19: '10p gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 10P GAIN MUTATED | 98 | 47 | 46 |
| 10P GAIN WILD-TYPE | 154 | 252 | 380 |
Figure S126. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 1.25e-12 (Fisher's exact test), Q value = 1e-09
Table S127. Gene #19: '10p gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 10P GAIN MUTATED | 33 | 20 | 72 |
| 10P GAIN WILD-TYPE | 217 | 199 | 126 |
Figure S127. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 2.09e-10 (Fisher's exact test), Q value = 1.6e-07
Table S128. Gene #19: '10p gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 10P GAIN MUTATED | 56 | 18 | 51 |
| 10P GAIN WILD-TYPE | 89 | 159 | 294 |
Figure S128. Get High-res Image Gene #19: '10p gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 3.91e-08 (Chi-square test), Q value = 2.6e-05
Table S129. Gene #20: '10q gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 10Q GAIN MUTATED | 16 | 28 | 16 | 48 | 5 |
| 10Q GAIN WILD-TYPE | 355 | 230 | 81 | 188 | 40 |
Figure S129. Get High-res Image Gene #20: '10q gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 0.000207 (Fisher's exact test), Q value = 0.095
Table S130. Gene #20: '10q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 10Q GAIN MUTATED | 39 | 54 | 20 |
| 10Q GAIN WILD-TYPE | 194 | 385 | 309 |
Figure S130. Get High-res Image Gene #20: '10q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 0.000305 (Fisher's exact test), Q value = 0.13
Table S131. Gene #20: '10q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 10Q GAIN MUTATED | 41 | 19 | 50 |
| 10Q GAIN WILD-TYPE | 357 | 268 | 242 |
Figure S131. Get High-res Image Gene #20: '10q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 0.000197 (Fisher's exact test), Q value = 0.091
Table S132. Gene #20: '10q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 10Q GAIN MUTATED | 47 | 27 | 36 |
| 10Q GAIN WILD-TYPE | 205 | 272 | 390 |
Figure S132. Get High-res Image Gene #20: '10q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 8.93e-05 (Fisher's exact test), Q value = 0.044
Table S133. Gene #20: '10q gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 10Q GAIN MUTATED | 24 | 12 | 37 |
| 10Q GAIN WILD-TYPE | 226 | 207 | 161 |
Figure S133. Get High-res Image Gene #20: '10q gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 3.38e-07 (Chi-square test), Q value = 0.00021
Table S134. Gene #21: '11p gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 11P GAIN MUTATED | 18 | 43 | 14 | 47 | 7 |
| 11P GAIN WILD-TYPE | 353 | 215 | 83 | 189 | 38 |
Figure S134. Get High-res Image Gene #21: '11p gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 0.000537 (Fisher's exact test), Q value = 0.22
Table S135. Gene #21: '11p gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 11P GAIN MUTATED | 40 | 13 | 32 |
| 11P GAIN WILD-TYPE | 210 | 206 | 166 |
Figure S135. Get High-res Image Gene #21: '11p gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 0.000425 (Fisher's exact test), Q value = 0.18
Table S136. Gene #21: '11p gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 11P GAIN MUTATED | 26 | 9 | 50 |
| 11P GAIN WILD-TYPE | 119 | 168 | 295 |
Figure S136. Get High-res Image Gene #21: '11p gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 4.64e-09 (Chi-square test), Q value = 3.3e-06
Table S137. Gene #22: '11q gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 11Q GAIN MUTATED | 11 | 19 | 10 | 43 | 7 |
| 11Q GAIN WILD-TYPE | 360 | 239 | 87 | 193 | 38 |
Figure S137. Get High-res Image Gene #22: '11q gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 0.00015 (Fisher's exact test), Q value = 0.071
Table S138. Gene #22: '11q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 11Q GAIN MUTATED | 42 | 10 | 38 |
| 11Q GAIN WILD-TYPE | 231 | 176 | 504 |
Figure S138. Get High-res Image Gene #22: '11q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 0.000412 (Fisher's exact test), Q value = 0.18
Table S139. Gene #22: '11q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 11Q GAIN MUTATED | 35 | 38 | 17 |
| 11Q GAIN WILD-TYPE | 198 | 401 | 312 |
Figure S139. Get High-res Image Gene #22: '11q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 0.000105 (Fisher's exact test), Q value = 0.051
Table S140. Gene #22: '11q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 11Q GAIN MUTATED | 29 | 14 | 43 |
| 11Q GAIN WILD-TYPE | 369 | 273 | 249 |
Figure S140. Get High-res Image Gene #22: '11q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 7.13e-05 (Fisher's exact test), Q value = 0.036
Table S141. Gene #22: '11q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 11Q GAIN MUTATED | 40 | 20 | 26 |
| 11Q GAIN WILD-TYPE | 212 | 279 | 400 |
Figure S141. Get High-res Image Gene #22: '11q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 0.000423 (Fisher's exact test), Q value = 0.18
Table S142. Gene #22: '11q gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 11Q GAIN MUTATED | 21 | 9 | 30 |
| 11Q GAIN WILD-TYPE | 229 | 210 | 168 |
Figure S142. Get High-res Image Gene #22: '11q gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 3.82e-05 (Fisher's exact test), Q value = 0.02
Table S143. Gene #22: '11q gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 11Q GAIN MUTATED | 25 | 5 | 30 |
| 11Q GAIN WILD-TYPE | 120 | 172 | 315 |
Figure S143. Get High-res Image Gene #22: '11q gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.000407 (Fisher's exact test), Q value = 0.17
Table S144. Gene #23: '12p gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 12P GAIN MUTATED | 13 | 38 | 63 |
| 12P GAIN WILD-TYPE | 109 | 87 | 203 |
Figure S144. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 5.32e-21 (Chi-square test), Q value = 4.8e-18
Table S145. Gene #23: '12p gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 12P GAIN MUTATED | 17 | 82 | 28 | 78 | 11 |
| 12P GAIN WILD-TYPE | 354 | 176 | 69 | 158 | 34 |
Figure S145. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 2.83e-09 (Chi-square test), Q value = 2.1e-06
Table S146. Gene #23: '12p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 12P GAIN MUTATED | 37 | 15 | 22 | 49 | 6 | 12 |
| 12P GAIN WILD-TYPE | 79 | 140 | 86 | 90 | 49 | 100 |
Figure S146. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 1.06e-07 (Fisher's exact test), Q value = 6.9e-05
Table S147. Gene #23: '12p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 12P GAIN MUTATED | 78 | 15 | 123 |
| 12P GAIN WILD-TYPE | 195 | 171 | 419 |
Figure S147. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 6.78e-09 (Fisher's exact test), Q value = 4.8e-06
Table S148. Gene #23: '12p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 12P GAIN MUTATED | 70 | 110 | 36 |
| 12P GAIN WILD-TYPE | 163 | 329 | 293 |
Figure S148. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 2.41e-05 (Fisher's exact test), Q value = 0.013
Table S149. Gene #23: '12p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 12P GAIN MUTATED | 75 | 43 | 88 |
| 12P GAIN WILD-TYPE | 323 | 244 | 204 |
Figure S149. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 7.29e-06 (Fisher's exact test), Q value = 0.0041
Table S150. Gene #23: '12p gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 12P GAIN MUTATED | 78 | 64 | 64 |
| 12P GAIN WILD-TYPE | 174 | 235 | 362 |
Figure S150. Get High-res Image Gene #23: '12p gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 2.78e-21 (Chi-square test), Q value = 2.5e-18
Table S151. Gene #24: '12q gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 12Q GAIN MUTATED | 16 | 88 | 28 | 37 | 10 |
| 12Q GAIN WILD-TYPE | 355 | 170 | 69 | 199 | 35 |
Figure S151. Get High-res Image Gene #24: '12q gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 4.4e-09 (Chi-square test), Q value = 3.1e-06
Table S152. Gene #24: '12q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 12Q GAIN MUTATED | 15 | 19 | 21 | 49 | 6 | 7 |
| 12Q GAIN WILD-TYPE | 101 | 136 | 87 | 90 | 49 | 105 |
Figure S152. Get High-res Image Gene #24: '12q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 2.43e-07 (Fisher's exact test), Q value = 0.00015
Table S153. Gene #24: '12q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 12Q GAIN MUTATED | 39 | 13 | 126 |
| 12Q GAIN WILD-TYPE | 234 | 173 | 416 |
Figure S153. Get High-res Image Gene #24: '12q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 1.36e-08 (Fisher's exact test), Q value = 9.4e-06
Table S154. Gene #24: '12q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 12Q GAIN MUTATED | 30 | 114 | 34 |
| 12Q GAIN WILD-TYPE | 203 | 325 | 295 |
Figure S154. Get High-res Image Gene #24: '12q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 3.09e-05 (Chi-square test), Q value = 0.016
Table S155. Gene #25: '13q gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 13Q GAIN MUTATED | 14 | 26 | 8 | 37 | 4 |
| 13Q GAIN WILD-TYPE | 357 | 232 | 89 | 199 | 41 |
Figure S155. Get High-res Image Gene #25: '13q gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 0.000141 (Fisher's exact test), Q value = 0.067
Table S156. Gene #25: '13q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 13Q GAIN MUTATED | 37 | 5 | 47 |
| 13Q GAIN WILD-TYPE | 236 | 181 | 495 |
Figure S156. Get High-res Image Gene #25: '13q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 8.69e-05 (Fisher's exact test), Q value = 0.043
Table S157. Gene #25: '13q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 13Q GAIN MUTATED | 32 | 44 | 13 |
| 13Q GAIN WILD-TYPE | 201 | 395 | 316 |
Figure S157. Get High-res Image Gene #25: '13q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00028 (Fisher's exact test), Q value = 0.12
Table S158. Gene #25: '13q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 13Q GAIN MUTATED | 25 | 17 | 42 |
| 13Q GAIN WILD-TYPE | 373 | 270 | 250 |
Figure S158. Get High-res Image Gene #25: '13q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 0.000489 (Fisher's exact test), Q value = 0.2
Table S159. Gene #25: '13q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 13Q GAIN MUTATED | 35 | 27 | 22 |
| 13Q GAIN WILD-TYPE | 217 | 272 | 404 |
Figure S159. Get High-res Image Gene #25: '13q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 1.64e-09 (Chi-square test), Q value = 1.2e-06
Table S160. Gene #26: '14q gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 14Q GAIN MUTATED | 25 | 61 | 22 | 23 | 8 |
| 14Q GAIN WILD-TYPE | 346 | 197 | 75 | 213 | 37 |
Figure S160. Get High-res Image Gene #26: '14q gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 0.000346 (Fisher's exact test), Q value = 0.15
Table S161. Gene #26: '14q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 14Q GAIN MUTATED | 30 | 13 | 95 |
| 14Q GAIN WILD-TYPE | 243 | 173 | 447 |
Figure S161. Get High-res Image Gene #26: '14q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 0.000179 (Fisher's exact test), Q value = 0.084
Table S162. Gene #26: '14q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 14Q GAIN MUTATED | 25 | 83 | 30 |
| 14Q GAIN WILD-TYPE | 208 | 356 | 299 |
Figure S162. Get High-res Image Gene #26: '14q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 0.000341 (Fisher's exact test), Q value = 0.15
Table S163. Gene #26: '14q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 14Q GAIN MUTATED | 76 | 26 | 33 |
| 14Q GAIN WILD-TYPE | 322 | 261 | 259 |
Figure S163. Get High-res Image Gene #26: '14q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 0.000344 (Chi-square test), Q value = 0.15
Table S164. Gene #28: '16p gain' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 16P GAIN MUTATED | 11 | 14 | 54 | 33 | 72 | 34 | 12 | 14 |
| 16P GAIN WILD-TYPE | 10 | 22 | 65 | 63 | 37 | 38 | 8 | 26 |
Figure S164. Get High-res Image Gene #28: '16p gain' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 0.000409 (Fisher's exact test), Q value = 0.17
Table S165. Gene #28: '16p gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 16P GAIN MUTATED | 54 | 43 | 147 |
| 16P GAIN WILD-TYPE | 68 | 82 | 119 |
Figure S165. Get High-res Image Gene #28: '16p gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 7.97e-10 (Chi-square test), Q value = 5.9e-07
Table S166. Gene #28: '16p gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 16P GAIN MUTATED | 144 | 128 | 71 | 83 | 21 |
| 16P GAIN WILD-TYPE | 227 | 130 | 26 | 153 | 24 |
Figure S166. Get High-res Image Gene #28: '16p gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 1.6e-05 (Chi-square test), Q value = 0.0088
Table S167. Gene #28: '16p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 16P GAIN MUTATED | 39 | 83 | 55 | 59 | 14 | 32 |
| 16P GAIN WILD-TYPE | 77 | 72 | 53 | 80 | 41 | 80 |
Figure S167. Get High-res Image Gene #28: '16p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 2.18e-07 (Fisher's exact test), Q value = 0.00014
Table S168. Gene #28: '16p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 16P GAIN MUTATED | 86 | 79 | 280 |
| 16P GAIN WILD-TYPE | 187 | 107 | 262 |
Figure S168. Get High-res Image Gene #28: '16p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 1.18e-08 (Fisher's exact test), Q value = 8.2e-06
Table S169. Gene #28: '16p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 16P GAIN MUTATED | 67 | 232 | 146 |
| 16P GAIN WILD-TYPE | 166 | 207 | 183 |
Figure S169. Get High-res Image Gene #28: '16p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 6.95e-06 (Fisher's exact test), Q value = 0.0039
Table S170. Gene #28: '16p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 16P GAIN MUTATED | 204 | 131 | 96 |
| 16P GAIN WILD-TYPE | 194 | 156 | 196 |
Figure S170. Get High-res Image Gene #28: '16p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 1.75e-05 (Fisher's exact test), Q value = 0.0096
Table S171. Gene #28: '16p gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 16P GAIN MUTATED | 124 | 104 | 58 |
| 16P GAIN WILD-TYPE | 126 | 115 | 140 |
Figure S171. Get High-res Image Gene #28: '16p gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 0.000258 (Fisher's exact test), Q value = 0.12
Table S172. Gene #28: '16p gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 16P GAIN MUTATED | 41 | 83 | 162 |
| 16P GAIN WILD-TYPE | 104 | 94 | 183 |
Figure S172. Get High-res Image Gene #28: '16p gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.000111 (Chi-square test), Q value = 0.054
Table S173. Gene #30: '17p gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 17P GAIN MUTATED | 21 | 44 | 11 | 21 | 7 |
| 17P GAIN WILD-TYPE | 350 | 214 | 86 | 215 | 38 |
Figure S173. Get High-res Image Gene #30: '17p gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 8.87e-09 (Chi-square test), Q value = 6.2e-06
Table S174. Gene #31: '17q gain' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 17Q GAIN MUTATED | 3 | 8 | 47 | 8 | 9 | 11 | 5 | 5 |
| 17Q GAIN WILD-TYPE | 18 | 28 | 72 | 88 | 100 | 61 | 15 | 35 |
Figure S174. Get High-res Image Gene #31: '17q gain' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 5.8e-05 (Fisher's exact test), Q value = 0.03
Table S175. Gene #31: '17q gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 17Q GAIN MUTATED | 15 | 12 | 69 |
| 17Q GAIN WILD-TYPE | 107 | 113 | 197 |
Figure S175. Get High-res Image Gene #31: '17q gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 5.9e-22 (Chi-square test), Q value = 5.4e-19
Table S176. Gene #31: '17q gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 17Q GAIN MUTATED | 36 | 107 | 17 | 33 | 14 |
| 17Q GAIN WILD-TYPE | 335 | 151 | 80 | 203 | 31 |
Figure S176. Get High-res Image Gene #31: '17q gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 2.03e-07 (Chi-square test), Q value = 0.00013
Table S177. Gene #31: '17q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 17Q GAIN MUTATED | 13 | 26 | 29 | 54 | 8 | 18 |
| 17Q GAIN WILD-TYPE | 103 | 129 | 79 | 85 | 47 | 94 |
Figure S177. Get High-res Image Gene #31: '17q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 8.59e-07 (Fisher's exact test), Q value = 0.00052
Table S178. Gene #31: '17q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 17Q GAIN MUTATED | 37 | 24 | 145 |
| 17Q GAIN WILD-TYPE | 236 | 162 | 397 |
Figure S178. Get High-res Image Gene #31: '17q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 1.21e-08 (Fisher's exact test), Q value = 8.4e-06
Table S179. Gene #31: '17q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 17Q GAIN MUTATED | 27 | 128 | 51 |
| 17Q GAIN WILD-TYPE | 206 | 311 | 278 |
Figure S179. Get High-res Image Gene #31: '17q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 2.74e-06 (Fisher's exact test), Q value = 0.0016
Table S180. Gene #31: '17q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 17Q GAIN MUTATED | 39 | 91 | 69 |
| 17Q GAIN WILD-TYPE | 213 | 208 | 357 |
Figure S180. Get High-res Image Gene #31: '17q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 1.1e-06 (Chi-square test), Q value = 0.00066
Table S181. Gene #32: '18p gain' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 18P GAIN MUTATED | 1 | 1 | 19 | 35 | 16 | 10 | 4 | 1 |
| 18P GAIN WILD-TYPE | 20 | 35 | 100 | 61 | 93 | 62 | 16 | 39 |
Figure S181. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 6.37e-08 (Fisher's exact test), Q value = 4.2e-05
Table S182. Gene #32: '18p gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 18P GAIN MUTATED | 7 | 41 | 39 |
| 18P GAIN WILD-TYPE | 115 | 84 | 227 |
Figure S182. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 8.25e-15 (Chi-square test), Q value = 7e-12
Table S183. Gene #32: '18p gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 18P GAIN MUTATED | 20 | 40 | 18 | 73 | 10 |
| 18P GAIN WILD-TYPE | 351 | 218 | 79 | 163 | 35 |
Figure S183. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 1.08e-12 (Chi-square test), Q value = 8.8e-10
Table S184. Gene #32: '18p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 18P GAIN MUTATED | 43 | 13 | 11 | 16 | 1 | 12 |
| 18P GAIN WILD-TYPE | 73 | 142 | 97 | 123 | 54 | 100 |
Figure S184. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 4.82e-05 (Fisher's exact test), Q value = 0.025
Table S185. Gene #32: '18p gain' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 161 | 110 | 126 |
| 18P GAIN MUTATED | 22 | 10 | 38 |
| 18P GAIN WILD-TYPE | 139 | 100 | 88 |
Figure S185. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
P value = 8.53e-15 (Fisher's exact test), Q value = 7.2e-12
Table S186. Gene #32: '18p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 18P GAIN MUTATED | 79 | 5 | 76 |
| 18P GAIN WILD-TYPE | 194 | 181 | 466 |
Figure S186. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 8.2e-20 (Fisher's exact test), Q value = 7.4e-17
Table S187. Gene #32: '18p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 18P GAIN MUTATED | 78 | 68 | 14 |
| 18P GAIN WILD-TYPE | 155 | 371 | 315 |
Figure S187. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 2.16e-11 (Fisher's exact test), Q value = 1.7e-08
Table S188. Gene #32: '18p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 18P GAIN MUTATED | 44 | 24 | 82 |
| 18P GAIN WILD-TYPE | 354 | 263 | 210 |
Figure S188. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 7.17e-14 (Fisher's exact test), Q value = 6e-11
Table S189. Gene #32: '18p gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 18P GAIN MUTATED | 79 | 33 | 38 |
| 18P GAIN WILD-TYPE | 173 | 266 | 388 |
Figure S189. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 1.2e-08 (Fisher's exact test), Q value = 8.3e-06
Table S190. Gene #32: '18p gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 18P GAIN MUTATED | 30 | 17 | 57 |
| 18P GAIN WILD-TYPE | 220 | 202 | 141 |
Figure S190. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 7.29e-10 (Fisher's exact test), Q value = 5.4e-07
Table S191. Gene #32: '18p gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 18P GAIN MUTATED | 48 | 12 | 44 |
| 18P GAIN WILD-TYPE | 97 | 165 | 301 |
Figure S191. Get High-res Image Gene #32: '18p gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 7.26e-05 (Chi-square test), Q value = 0.036
Table S192. Gene #33: '18q gain' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 18Q GAIN MUTATED | 2 | 1 | 21 | 29 | 17 | 5 | 4 | 1 |
| 18Q GAIN WILD-TYPE | 19 | 35 | 98 | 67 | 92 | 67 | 16 | 39 |
Figure S192. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 0.000119 (Fisher's exact test), Q value = 0.057
Table S193. Gene #33: '18q gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 18Q GAIN MUTATED | 7 | 31 | 42 |
| 18Q GAIN WILD-TYPE | 115 | 94 | 224 |
Figure S193. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 1.39e-12 (Chi-square test), Q value = 1.1e-09
Table S194. Gene #33: '18q gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 18Q GAIN MUTATED | 15 | 36 | 19 | 60 | 10 |
| 18Q GAIN WILD-TYPE | 356 | 222 | 78 | 176 | 35 |
Figure S194. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 7.3e-05 (Chi-square test), Q value = 0.037
Table S195. Gene #33: '18q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 18Q GAIN MUTATED | 29 | 13 | 11 | 17 | 2 | 9 |
| 18Q GAIN WILD-TYPE | 87 | 142 | 97 | 122 | 53 | 103 |
Figure S195. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 6.25e-09 (Fisher's exact test), Q value = 4.4e-06
Table S196. Gene #33: '18q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 18Q GAIN MUTATED | 58 | 5 | 76 |
| 18Q GAIN WILD-TYPE | 215 | 181 | 466 |
Figure S196. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 5.18e-10 (Fisher's exact test), Q value = 3.9e-07
Table S197. Gene #33: '18q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 18Q GAIN MUTATED | 55 | 67 | 17 |
| 18Q GAIN WILD-TYPE | 178 | 372 | 312 |
Figure S197. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 8.9e-07 (Fisher's exact test), Q value = 0.00054
Table S198. Gene #33: '18q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 18Q GAIN MUTATED | 45 | 21 | 64 |
| 18Q GAIN WILD-TYPE | 353 | 266 | 228 |
Figure S198. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 1.77e-05 (Fisher's exact test), Q value = 0.0097
Table S199. Gene #33: '18q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 18Q GAIN MUTATED | 55 | 37 | 38 |
| 18Q GAIN WILD-TYPE | 197 | 262 | 388 |
Figure S199. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 0.000462 (Fisher's exact test), Q value = 0.19
Table S200. Gene #33: '18q gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 18Q GAIN MUTATED | 26 | 17 | 40 |
| 18Q GAIN WILD-TYPE | 224 | 202 | 158 |
Figure S200. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 0.000233 (Fisher's exact test), Q value = 0.11
Table S201. Gene #33: '18q gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 18Q GAIN MUTATED | 30 | 10 | 43 |
| 18Q GAIN WILD-TYPE | 115 | 167 | 302 |
Figure S201. Get High-res Image Gene #33: '18q gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 3.32e-10 (Chi-square test), Q value = 2.5e-07
Table S202. Gene #34: '19p gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 19P GAIN MUTATED | 31 | 39 | 27 | 67 | 7 |
| 19P GAIN WILD-TYPE | 340 | 219 | 70 | 169 | 38 |
Figure S202. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 0.000124 (Fisher's exact test), Q value = 0.06
Table S203. Gene #34: '19p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 19P GAIN MUTATED | 69 | 23 | 77 |
| 19P GAIN WILD-TYPE | 204 | 163 | 465 |
Figure S203. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 5.68e-06 (Fisher's exact test), Q value = 0.0032
Table S204. Gene #34: '19p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 19P GAIN MUTATED | 65 | 61 | 43 |
| 19P GAIN WILD-TYPE | 168 | 378 | 286 |
Figure S204. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 2.98e-05 (Fisher's exact test), Q value = 0.016
Table S205. Gene #34: '19p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 19P GAIN MUTATED | 50 | 40 | 74 |
| 19P GAIN WILD-TYPE | 348 | 247 | 218 |
Figure S205. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 0.000468 (Fisher's exact test), Q value = 0.19
Table S206. Gene #34: '19p gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 19P GAIN MUTATED | 63 | 42 | 59 |
| 19P GAIN WILD-TYPE | 189 | 257 | 367 |
Figure S206. Get High-res Image Gene #34: '19p gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 6.9e-13 (Chi-square test), Q value = 5.6e-10
Table S207. Gene #35: '19q gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 19Q GAIN MUTATED | 33 | 49 | 31 | 78 | 11 |
| 19Q GAIN WILD-TYPE | 338 | 209 | 66 | 158 | 34 |
Figure S207. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 0.000454 (Fisher's exact test), Q value = 0.19
Table S208. Gene #35: '19q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 19Q GAIN MUTATED | 77 | 29 | 94 |
| 19Q GAIN WILD-TYPE | 196 | 157 | 448 |
Figure S208. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 8.08e-05 (Fisher's exact test), Q value = 0.04
Table S209. Gene #35: '19q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 19Q GAIN MUTATED | 70 | 79 | 51 |
| 19Q GAIN WILD-TYPE | 163 | 360 | 278 |
Figure S209. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 0.000136 (Fisher's exact test), Q value = 0.065
Table S210. Gene #35: '19q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 19Q GAIN MUTATED | 64 | 48 | 83 |
| 19Q GAIN WILD-TYPE | 334 | 239 | 209 |
Figure S210. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 9.84e-05 (Fisher's exact test), Q value = 0.048
Table S211. Gene #35: '19q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 19Q GAIN MUTATED | 74 | 54 | 67 |
| 19Q GAIN WILD-TYPE | 178 | 245 | 359 |
Figure S211. Get High-res Image Gene #35: '19q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 3e-05 (Chi-square test), Q value = 0.016
Table S212. Gene #36: '20p gain' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 20P GAIN MUTATED | 8 | 13 | 49 | 42 | 34 | 42 | 15 | 7 |
| 20P GAIN WILD-TYPE | 13 | 23 | 70 | 54 | 75 | 30 | 5 | 33 |
Figure S212. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 1.6e-31 (Chi-square test), Q value = 1.5e-28
Table S213. Gene #36: '20p gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 20P GAIN MUTATED | 53 | 142 | 56 | 118 | 20 |
| 20P GAIN WILD-TYPE | 318 | 116 | 41 | 118 | 25 |
Figure S213. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 3.81e-09 (Chi-square test), Q value = 2.7e-06
Table S214. Gene #36: '20p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 20P GAIN MUTATED | 47 | 35 | 49 | 79 | 13 | 33 |
| 20P GAIN WILD-TYPE | 69 | 120 | 59 | 60 | 42 | 79 |
Figure S214. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 2.86e-07 (Fisher's exact test), Q value = 0.00018
Table S215. Gene #36: '20p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 20P GAIN MUTATED | 118 | 40 | 229 |
| 20P GAIN WILD-TYPE | 155 | 146 | 313 |
Figure S215. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 1.54e-06 (Fisher's exact test), Q value = 0.00092
Table S216. Gene #36: '20p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 20P GAIN MUTATED | 96 | 200 | 91 |
| 20P GAIN WILD-TYPE | 137 | 239 | 238 |
Figure S216. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 2.6e-05 (Fisher's exact test), Q value = 0.014
Table S217. Gene #36: '20p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 20P GAIN MUTATED | 165 | 80 | 132 |
| 20P GAIN WILD-TYPE | 233 | 207 | 160 |
Figure S217. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 0.000262 (Fisher's exact test), Q value = 0.12
Table S218. Gene #36: '20p gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 20P GAIN MUTATED | 117 | 125 | 135 |
| 20P GAIN WILD-TYPE | 135 | 174 | 291 |
Figure S218. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 0.000201 (Fisher's exact test), Q value = 0.093
Table S219. Gene #36: '20p gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 20P GAIN MUTATED | 60 | 45 | 149 |
| 20P GAIN WILD-TYPE | 85 | 132 | 196 |
Figure S219. Get High-res Image Gene #36: '20p gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 7.43e-05 (Chi-square test), Q value = 0.037
Table S220. Gene #37: '20q gain' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 20Q GAIN MUTATED | 7 | 13 | 61 | 40 | 35 | 42 | 15 | 10 |
| 20Q GAIN WILD-TYPE | 14 | 23 | 58 | 56 | 74 | 30 | 5 | 30 |
Figure S220. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 2.16e-36 (Chi-square test), Q value = 2.1e-33
Table S221. Gene #37: '20q gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 20Q GAIN MUTATED | 59 | 165 | 56 | 120 | 22 |
| 20Q GAIN WILD-TYPE | 312 | 93 | 41 | 116 | 23 |
Figure S221. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 1.24e-14 (Chi-square test), Q value = 1e-11
Table S222. Gene #37: '20q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 20Q GAIN MUTATED | 52 | 36 | 55 | 91 | 12 | 33 |
| 20Q GAIN WILD-TYPE | 64 | 119 | 53 | 48 | 43 | 79 |
Figure S222. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 8.24e-09 (Fisher's exact test), Q value = 5.8e-06
Table S223. Gene #37: '20q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 20Q GAIN MUTATED | 122 | 42 | 255 |
| 20Q GAIN WILD-TYPE | 151 | 144 | 287 |
Figure S223. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 2.46e-08 (Fisher's exact test), Q value = 1.7e-05
Table S224. Gene #37: '20q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 20Q GAIN MUTATED | 100 | 222 | 97 |
| 20Q GAIN WILD-TYPE | 133 | 217 | 232 |
Figure S224. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 1.37e-06 (Fisher's exact test), Q value = 0.00082
Table S225. Gene #37: '20q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 20Q GAIN MUTATED | 186 | 85 | 141 |
| 20Q GAIN WILD-TYPE | 212 | 202 | 151 |
Figure S225. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 2.12e-06 (Fisher's exact test), Q value = 0.0012
Table S226. Gene #37: '20q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 20Q GAIN MUTATED | 120 | 151 | 141 |
| 20Q GAIN WILD-TYPE | 132 | 148 | 285 |
Figure S226. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 3.44e-05 (Fisher's exact test), Q value = 0.018
Table S227. Gene #37: '20q gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 20Q GAIN MUTATED | 121 | 66 | 96 |
| 20Q GAIN WILD-TYPE | 129 | 153 | 102 |
Figure S227. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 2.81e-05 (Fisher's exact test), Q value = 0.015
Table S228. Gene #37: '20q gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 20Q GAIN MUTATED | 65 | 50 | 168 |
| 20Q GAIN WILD-TYPE | 80 | 127 | 177 |
Figure S228. Get High-res Image Gene #37: '20q gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 5.21e-10 (Chi-square test), Q value = 3.9e-07
Table S229. Gene #38: '21q gain' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 21Q GAIN MUTATED | 2 | 2 | 16 | 31 | 11 | 31 | 8 | 3 |
| 21Q GAIN WILD-TYPE | 19 | 34 | 103 | 65 | 98 | 41 | 12 | 37 |
Figure S229. Get High-res Image Gene #38: '21q gain' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 6.2e-07 (Fisher's exact test), Q value = 0.00038
Table S230. Gene #38: '21q gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 21Q GAIN MUTATED | 11 | 45 | 48 |
| 21Q GAIN WILD-TYPE | 111 | 80 | 218 |
Figure S230. Get High-res Image Gene #38: '21q gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 1.32e-15 (Chi-square test), Q value = 1.1e-12
Table S231. Gene #38: '21q gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 21Q GAIN MUTATED | 31 | 36 | 23 | 83 | 11 |
| 21Q GAIN WILD-TYPE | 340 | 222 | 74 | 153 | 34 |
Figure S231. Get High-res Image Gene #38: '21q gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 6.71e-09 (Chi-square test), Q value = 4.7e-06
Table S232. Gene #38: '21q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 21Q GAIN MUTATED | 43 | 14 | 21 | 18 | 5 | 14 |
| 21Q GAIN WILD-TYPE | 73 | 141 | 87 | 121 | 50 | 98 |
Figure S232. Get High-res Image Gene #38: '21q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 0.000202 (Fisher's exact test), Q value = 0.093
Table S233. Gene #38: '21q gain' versus Molecular Subtype #5: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 147 | 133 | 117 |
| 21Q GAIN MUTATED | 47 | 16 | 22 |
| 21Q GAIN WILD-TYPE | 100 | 117 | 95 |
Figure S233. Get High-res Image Gene #38: '21q gain' versus Molecular Subtype #5: 'RPPA_CNMF'
P value = 7.86e-05 (Fisher's exact test), Q value = 0.039
Table S234. Gene #38: '21q gain' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 161 | 110 | 126 |
| 21Q GAIN MUTATED | 24 | 17 | 44 |
| 21Q GAIN WILD-TYPE | 137 | 93 | 82 |
Figure S234. Get High-res Image Gene #38: '21q gain' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
P value = 1.99e-16 (Fisher's exact test), Q value = 1.7e-13
Table S235. Gene #38: '21q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 21Q GAIN MUTATED | 95 | 11 | 77 |
| 21Q GAIN WILD-TYPE | 178 | 175 | 465 |
Figure S235. Get High-res Image Gene #38: '21q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 2.17e-16 (Fisher's exact test), Q value = 1.9e-13
Table S236. Gene #38: '21q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 21Q GAIN MUTATED | 83 | 76 | 24 |
| 21Q GAIN WILD-TYPE | 150 | 363 | 305 |
Figure S236. Get High-res Image Gene #38: '21q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 1.55e-08 (Fisher's exact test), Q value = 1.1e-05
Table S237. Gene #38: '21q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 21Q GAIN MUTATED | 61 | 31 | 86 |
| 21Q GAIN WILD-TYPE | 337 | 256 | 206 |
Figure S237. Get High-res Image Gene #38: '21q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 8.44e-13 (Fisher's exact test), Q value = 6.9e-10
Table S238. Gene #38: '21q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 21Q GAIN MUTATED | 87 | 41 | 50 |
| 21Q GAIN WILD-TYPE | 165 | 258 | 376 |
Figure S238. Get High-res Image Gene #38: '21q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 1.83e-08 (Fisher's exact test), Q value = 1.3e-05
Table S239. Gene #38: '21q gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 21Q GAIN MUTATED | 35 | 23 | 64 |
| 21Q GAIN WILD-TYPE | 215 | 196 | 134 |
Figure S239. Get High-res Image Gene #38: '21q gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 1.01e-07 (Fisher's exact test), Q value = 6.6e-05
Table S240. Gene #38: '21q gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 21Q GAIN MUTATED | 51 | 21 | 50 |
| 21Q GAIN WILD-TYPE | 94 | 156 | 295 |
Figure S240. Get High-res Image Gene #38: '21q gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1.66e-05 (Chi-square test), Q value = 0.0091
Table S241. Gene #39: '22q gain' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 22Q GAIN MUTATED | 3 | 0 | 12 | 18 | 2 | 15 | 2 | 0 |
| 22Q GAIN WILD-TYPE | 18 | 36 | 107 | 78 | 107 | 57 | 18 | 40 |
Figure S241. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 1.76e-06 (Fisher's exact test), Q value = 0.001
Table S242. Gene #39: '22q gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 22Q GAIN MUTATED | 1 | 24 | 27 |
| 22Q GAIN WILD-TYPE | 121 | 101 | 239 |
Figure S242. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 1.28e-11 (Chi-square test), Q value = 1e-08
Table S243. Gene #39: '22q gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 22Q GAIN MUTATED | 10 | 27 | 3 | 47 | 4 |
| 22Q GAIN WILD-TYPE | 361 | 231 | 94 | 189 | 41 |
Figure S243. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 5.38e-05 (Chi-square test), Q value = 0.028
Table S244. Gene #39: '22q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 22Q GAIN MUTATED | 20 | 3 | 14 | 12 | 1 | 7 |
| 22Q GAIN WILD-TYPE | 96 | 152 | 94 | 127 | 54 | 105 |
Figure S244. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 8.26e-06 (Fisher's exact test), Q value = 0.0046
Table S245. Gene #39: '22q gain' versus Molecular Subtype #5: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 147 | 133 | 117 |
| 22Q GAIN MUTATED | 31 | 5 | 8 |
| 22Q GAIN WILD-TYPE | 116 | 128 | 109 |
Figure S245. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #5: 'RPPA_CNMF'
P value = 6.3e-15 (Fisher's exact test), Q value = 5.4e-12
Table S246. Gene #39: '22q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 22Q GAIN MUTATED | 54 | 0 | 36 |
| 22Q GAIN WILD-TYPE | 219 | 186 | 506 |
Figure S246. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 1.33e-12 (Fisher's exact test), Q value = 1.1e-09
Table S247. Gene #39: '22q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 22Q GAIN MUTATED | 44 | 41 | 5 |
| 22Q GAIN WILD-TYPE | 189 | 398 | 324 |
Figure S247. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 2.11e-09 (Fisher's exact test), Q value = 1.5e-06
Table S248. Gene #39: '22q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 22Q GAIN MUTATED | 31 | 7 | 50 |
| 22Q GAIN WILD-TYPE | 367 | 280 | 242 |
Figure S248. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 3.63e-11 (Fisher's exact test), Q value = 2.8e-08
Table S249. Gene #39: '22q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 22Q GAIN MUTATED | 49 | 25 | 14 |
| 22Q GAIN WILD-TYPE | 203 | 274 | 412 |
Figure S249. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 7.81e-06 (Fisher's exact test), Q value = 0.0044
Table S250. Gene #39: '22q gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 22Q GAIN MUTATED | 19 | 7 | 33 |
| 22Q GAIN WILD-TYPE | 231 | 212 | 165 |
Figure S250. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 1.92e-06 (Fisher's exact test), Q value = 0.0011
Table S251. Gene #39: '22q gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 22Q GAIN MUTATED | 27 | 4 | 28 |
| 22Q GAIN WILD-TYPE | 118 | 173 | 317 |
Figure S251. Get High-res Image Gene #39: '22q gain' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 8.96e-05 (Fisher's exact test), Q value = 0.044
Table S252. Gene #40: 'xq gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| XQ GAIN MUTATED | 8 | 33 | 40 |
| XQ GAIN WILD-TYPE | 114 | 92 | 226 |
Figure S252. Get High-res Image Gene #40: 'xq gain' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 9e-09 (Chi-square test), Q value = 6.3e-06
Table S253. Gene #40: 'xq gain' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| XQ GAIN MUTATED | 16 | 39 | 18 | 50 | 8 |
| XQ GAIN WILD-TYPE | 355 | 219 | 79 | 186 | 37 |
Figure S253. Get High-res Image Gene #40: 'xq gain' versus Molecular Subtype #3: 'CN_CNMF'
P value = 8.6e-07 (Fisher's exact test), Q value = 0.00052
Table S254. Gene #40: 'xq gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| XQ GAIN MUTATED | 54 | 7 | 69 |
| XQ GAIN WILD-TYPE | 219 | 179 | 473 |
Figure S254. Get High-res Image Gene #40: 'xq gain' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 3.89e-07 (Fisher's exact test), Q value = 0.00024
Table S255. Gene #40: 'xq gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| XQ GAIN MUTATED | 48 | 63 | 19 |
| XQ GAIN WILD-TYPE | 185 | 376 | 310 |
Figure S255. Get High-res Image Gene #40: 'xq gain' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 8.24e-08 (Fisher's exact test), Q value = 5.4e-05
Table S256. Gene #40: 'xq gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| XQ GAIN MUTATED | 50 | 14 | 59 |
| XQ GAIN WILD-TYPE | 348 | 273 | 233 |
Figure S256. Get High-res Image Gene #40: 'xq gain' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 1.57e-05 (Fisher's exact test), Q value = 0.0086
Table S257. Gene #40: 'xq gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| XQ GAIN MUTATED | 52 | 37 | 34 |
| XQ GAIN WILD-TYPE | 200 | 262 | 392 |
Figure S257. Get High-res Image Gene #40: 'xq gain' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00022 (Fisher's exact test), Q value = 0.1
Table S258. Gene #40: 'xq gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| XQ GAIN MUTATED | 27 | 12 | 36 |
| XQ GAIN WILD-TYPE | 223 | 207 | 162 |
Figure S258. Get High-res Image Gene #40: 'xq gain' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 0.000238 (Chi-square test), Q value = 0.11
Table S259. Gene #41: '1p loss' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 1P LOSS MUTATED | 3 | 6 | 34 | 10 | 28 | 30 | 3 | 7 |
| 1P LOSS WILD-TYPE | 18 | 30 | 85 | 86 | 81 | 42 | 17 | 33 |
Figure S259. Get High-res Image Gene #41: '1p loss' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 6.75e-07 (Fisher's exact test), Q value = 0.00041
Table S260. Gene #41: '1p loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 1P LOSS MUTATED | 18 | 15 | 88 |
| 1P LOSS WILD-TYPE | 104 | 110 | 178 |
Figure S260. Get High-res Image Gene #41: '1p loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 4.65e-22 (Chi-square test), Q value = 4.3e-19
Table S261. Gene #41: '1p loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 1P LOSS MUTATED | 35 | 93 | 48 | 42 | 12 |
| 1P LOSS WILD-TYPE | 336 | 165 | 49 | 194 | 33 |
Figure S261. Get High-res Image Gene #41: '1p loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 1.25e-07 (Chi-square test), Q value = 8.1e-05
Table S262. Gene #41: '1p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 1P LOSS MUTATED | 16 | 26 | 40 | 45 | 7 | 13 |
| 1P LOSS WILD-TYPE | 100 | 129 | 68 | 94 | 48 | 99 |
Figure S262. Get High-res Image Gene #41: '1p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 1.04e-07 (Fisher's exact test), Q value = 6.7e-05
Table S263. Gene #41: '1p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 1P LOSS MUTATED | 43 | 25 | 161 |
| 1P LOSS WILD-TYPE | 230 | 161 | 381 |
Figure S263. Get High-res Image Gene #41: '1p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 9.61e-13 (Fisher's exact test), Q value = 7.8e-10
Table S264. Gene #41: '1p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 1P LOSS MUTATED | 28 | 149 | 52 |
| 1P LOSS WILD-TYPE | 205 | 290 | 277 |
Figure S264. Get High-res Image Gene #41: '1p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 6.35e-05 (Fisher's exact test), Q value = 0.033
Table S265. Gene #43: '2p loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 2P LOSS MUTATED | 15 | 11 | 67 |
| 2P LOSS WILD-TYPE | 107 | 114 | 199 |
Figure S265. Get High-res Image Gene #43: '2p loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 7.62e-15 (Chi-square test), Q value = 6.5e-12
Table S266. Gene #43: '2p loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 2P LOSS MUTATED | 26 | 77 | 29 | 29 | 9 |
| 2P LOSS WILD-TYPE | 345 | 181 | 68 | 207 | 36 |
Figure S266. Get High-res Image Gene #43: '2p loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 1.49e-07 (Chi-square test), Q value = 9.5e-05
Table S267. Gene #43: '2p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 2P LOSS MUTATED | 9 | 23 | 22 | 41 | 3 | 7 |
| 2P LOSS WILD-TYPE | 107 | 132 | 86 | 98 | 52 | 105 |
Figure S267. Get High-res Image Gene #43: '2p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 3.63e-08 (Fisher's exact test), Q value = 2.5e-05
Table S268. Gene #43: '2p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 2P LOSS MUTATED | 25 | 18 | 125 |
| 2P LOSS WILD-TYPE | 248 | 168 | 417 |
Figure S268. Get High-res Image Gene #43: '2p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 1.48e-10 (Fisher's exact test), Q value = 1.1e-07
Table S269. Gene #43: '2p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 2P LOSS MUTATED | 17 | 112 | 39 |
| 2P LOSS WILD-TYPE | 216 | 327 | 290 |
Figure S269. Get High-res Image Gene #43: '2p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 0.000126 (Fisher's exact test), Q value = 0.06
Table S270. Gene #43: '2p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 2P LOSS MUTATED | 91 | 35 | 37 |
| 2P LOSS WILD-TYPE | 307 | 252 | 255 |
Figure S270. Get High-res Image Gene #43: '2p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 0.000314 (Fisher's exact test), Q value = 0.14
Table S271. Gene #43: '2p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 2P LOSS MUTATED | 29 | 71 | 63 |
| 2P LOSS WILD-TYPE | 223 | 228 | 363 |
Figure S271. Get High-res Image Gene #43: '2p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 0.00033 (Fisher's exact test), Q value = 0.14
Table S272. Gene #43: '2p loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 2P LOSS MUTATED | 13 | 19 | 73 |
| 2P LOSS WILD-TYPE | 132 | 158 | 272 |
Figure S272. Get High-res Image Gene #43: '2p loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 8.5e-14 (Chi-square test), Q value = 7.1e-11
Table S273. Gene #44: '2q loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 2Q LOSS MUTATED | 28 | 80 | 31 | 42 | 11 |
| 2Q LOSS WILD-TYPE | 343 | 178 | 66 | 194 | 34 |
Figure S273. Get High-res Image Gene #44: '2q loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 1.78e-06 (Chi-square test), Q value = 0.0011
Table S274. Gene #44: '2q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 2Q LOSS MUTATED | 18 | 22 | 20 | 46 | 4 | 10 |
| 2Q LOSS WILD-TYPE | 98 | 133 | 88 | 93 | 51 | 102 |
Figure S274. Get High-res Image Gene #44: '2q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 0.000444 (Fisher's exact test), Q value = 0.19
Table S275. Gene #44: '2q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 147 | 133 | 117 |
| 2Q LOSS MUTATED | 32 | 36 | 10 |
| 2Q LOSS WILD-TYPE | 115 | 97 | 107 |
Figure S275. Get High-res Image Gene #44: '2q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
P value = 0.000334 (Fisher's exact test), Q value = 0.15
Table S276. Gene #44: '2q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 2Q LOSS MUTATED | 47 | 19 | 124 |
| 2Q LOSS WILD-TYPE | 226 | 167 | 418 |
Figure S276. Get High-res Image Gene #44: '2q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 7.96e-07 (Fisher's exact test), Q value = 0.00048
Table S277. Gene #44: '2q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 2Q LOSS MUTATED | 33 | 116 | 41 |
| 2Q LOSS WILD-TYPE | 200 | 323 | 288 |
Figure S277. Get High-res Image Gene #44: '2q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 2.85e-06 (Chi-square test), Q value = 0.0017
Table S278. Gene #45: '3p loss' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 3P LOSS MUTATED | 0 | 7 | 19 | 29 | 4 | 19 | 6 | 4 |
| 3P LOSS WILD-TYPE | 21 | 29 | 100 | 67 | 105 | 53 | 14 | 36 |
Figure S278. Get High-res Image Gene #45: '3p loss' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 9e-05 (Fisher's exact test), Q value = 0.044
Table S279. Gene #45: '3p loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 3P LOSS MUTATED | 15 | 38 | 35 |
| 3P LOSS WILD-TYPE | 107 | 87 | 231 |
Figure S279. Get High-res Image Gene #45: '3p loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 9.47e-15 (Chi-square test), Q value = 8e-12
Table S280. Gene #45: '3p loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 3P LOSS MUTATED | 25 | 52 | 15 | 76 | 3 |
| 3P LOSS WILD-TYPE | 346 | 206 | 82 | 160 | 42 |
Figure S280. Get High-res Image Gene #45: '3p loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 1.19e-07 (Chi-square test), Q value = 7.7e-05
Table S281. Gene #45: '3p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 3P LOSS MUTATED | 35 | 8 | 26 | 27 | 5 | 12 |
| 3P LOSS WILD-TYPE | 81 | 147 | 82 | 112 | 50 | 100 |
Figure S281. Get High-res Image Gene #45: '3p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 0.000382 (Fisher's exact test), Q value = 0.16
Table S282. Gene #45: '3p loss' versus Molecular Subtype #5: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 147 | 133 | 117 |
| 3P LOSS MUTATED | 43 | 18 | 14 |
| 3P LOSS WILD-TYPE | 104 | 115 | 103 |
Figure S282. Get High-res Image Gene #45: '3p loss' versus Molecular Subtype #5: 'RPPA_CNMF'
P value = 8.85e-05 (Fisher's exact test), Q value = 0.044
Table S283. Gene #45: '3p loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 161 | 110 | 126 |
| 3P LOSS MUTATED | 21 | 14 | 40 |
| 3P LOSS WILD-TYPE | 140 | 96 | 86 |
Figure S283. Get High-res Image Gene #45: '3p loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
P value = 1.61e-10 (Fisher's exact test), Q value = 1.2e-07
Table S284. Gene #45: '3p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 3P LOSS MUTATED | 82 | 16 | 71 |
| 3P LOSS WILD-TYPE | 191 | 170 | 471 |
Figure S284. Get High-res Image Gene #45: '3p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 7.04e-08 (Fisher's exact test), Q value = 4.6e-05
Table S285. Gene #45: '3p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 3P LOSS MUTATED | 68 | 66 | 35 |
| 3P LOSS WILD-TYPE | 165 | 373 | 294 |
Figure S285. Get High-res Image Gene #45: '3p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 1.11e-10 (Fisher's exact test), Q value = 8.5e-08
Table S286. Gene #45: '3p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 3P LOSS MUTATED | 48 | 29 | 86 |
| 3P LOSS WILD-TYPE | 350 | 258 | 206 |
Figure S286. Get High-res Image Gene #45: '3p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 5.66e-08 (Fisher's exact test), Q value = 3.8e-05
Table S287. Gene #45: '3p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 3P LOSS MUTATED | 70 | 49 | 44 |
| 3P LOSS WILD-TYPE | 182 | 250 | 382 |
Figure S287. Get High-res Image Gene #45: '3p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 4.15e-08 (Fisher's exact test), Q value = 2.8e-05
Table S288. Gene #45: '3p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 3P LOSS MUTATED | 32 | 20 | 59 |
| 3P LOSS WILD-TYPE | 218 | 199 | 139 |
Figure S288. Get High-res Image Gene #45: '3p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 8.4e-05 (Fisher's exact test), Q value = 0.042
Table S289. Gene #45: '3p loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 3P LOSS MUTATED | 42 | 21 | 48 |
| 3P LOSS WILD-TYPE | 103 | 156 | 297 |
Figure S289. Get High-res Image Gene #45: '3p loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 2.14e-06 (Chi-square test), Q value = 0.0013
Table S290. Gene #46: '3q loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 3Q LOSS MUTATED | 12 | 31 | 10 | 38 | 3 |
| 3Q LOSS WILD-TYPE | 359 | 227 | 87 | 198 | 42 |
Figure S290. Get High-res Image Gene #46: '3q loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 0.000446 (Chi-square test), Q value = 0.19
Table S291. Gene #46: '3q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 3Q LOSS MUTATED | 20 | 7 | 14 | 17 | 2 | 4 |
| 3Q LOSS WILD-TYPE | 96 | 148 | 94 | 122 | 53 | 108 |
Figure S291. Get High-res Image Gene #46: '3q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 0.000509 (Fisher's exact test), Q value = 0.21
Table S292. Gene #46: '3q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 3Q LOSS MUTATED | 40 | 8 | 45 |
| 3Q LOSS WILD-TYPE | 233 | 178 | 497 |
Figure S292. Get High-res Image Gene #46: '3q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 0.000528 (Fisher's exact test), Q value = 0.22
Table S293. Gene #46: '3q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 3Q LOSS MUTATED | 33 | 44 | 16 |
| 3Q LOSS WILD-TYPE | 200 | 395 | 313 |
Figure S293. Get High-res Image Gene #46: '3q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 0.000528 (Fisher's exact test), Q value = 0.22
Table S294. Gene #46: '3q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 3Q LOSS MUTATED | 29 | 17 | 43 |
| 3Q LOSS WILD-TYPE | 369 | 270 | 249 |
Figure S294. Get High-res Image Gene #46: '3q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 2.99e-14 (Chi-square test), Q value = 2.5e-11
Table S295. Gene #47: '4p loss' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 4P LOSS MUTATED | 4 | 8 | 24 | 59 | 22 | 41 | 8 | 7 |
| 4P LOSS WILD-TYPE | 17 | 28 | 95 | 37 | 87 | 31 | 12 | 33 |
Figure S295. Get High-res Image Gene #47: '4p loss' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 2.91e-13 (Fisher's exact test), Q value = 2.4e-10
Table S296. Gene #47: '4p loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 4P LOSS MUTATED | 21 | 76 | 76 |
| 4P LOSS WILD-TYPE | 101 | 49 | 190 |
Figure S296. Get High-res Image Gene #47: '4p loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 3.95e-37 (Chi-square test), Q value = 3.8e-34
Table S297. Gene #47: '4p loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 4P LOSS MUTATED | 52 | 68 | 45 | 151 | 14 |
| 4P LOSS WILD-TYPE | 319 | 190 | 52 | 85 | 31 |
Figure S297. Get High-res Image Gene #47: '4p loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 5.22e-19 (Chi-square test), Q value = 4.7e-16
Table S298. Gene #47: '4p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 4P LOSS MUTATED | 79 | 31 | 36 | 33 | 8 | 28 |
| 4P LOSS WILD-TYPE | 37 | 124 | 72 | 106 | 47 | 84 |
Figure S298. Get High-res Image Gene #47: '4p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 4.59e-07 (Fisher's exact test), Q value = 0.00028
Table S299. Gene #47: '4p loss' versus Molecular Subtype #5: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 147 | 133 | 117 |
| 4P LOSS MUTATED | 76 | 39 | 25 |
| 4P LOSS WILD-TYPE | 71 | 94 | 92 |
Figure S299. Get High-res Image Gene #47: '4p loss' versus Molecular Subtype #5: 'RPPA_CNMF'
P value = 8.75e-07 (Fisher's exact test), Q value = 0.00053
Table S300. Gene #47: '4p loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 161 | 110 | 126 |
| 4P LOSS MUTATED | 45 | 27 | 68 |
| 4P LOSS WILD-TYPE | 116 | 83 | 58 |
Figure S300. Get High-res Image Gene #47: '4p loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
P value = 7.94e-29 (Fisher's exact test), Q value = 7.5e-26
Table S301. Gene #47: '4p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 4P LOSS MUTATED | 162 | 25 | 140 |
| 4P LOSS WILD-TYPE | 111 | 161 | 402 |
Figure S301. Get High-res Image Gene #47: '4p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 5.35e-27 (Fisher's exact test), Q value = 5e-24
Table S302. Gene #47: '4p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 4P LOSS MUTATED | 143 | 126 | 58 |
| 4P LOSS WILD-TYPE | 90 | 313 | 271 |
Figure S302. Get High-res Image Gene #47: '4p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 1.31e-21 (Fisher's exact test), Q value = 1.2e-18
Table S303. Gene #47: '4p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 4P LOSS MUTATED | 111 | 48 | 157 |
| 4P LOSS WILD-TYPE | 287 | 239 | 135 |
Figure S303. Get High-res Image Gene #47: '4p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 4.71e-23 (Fisher's exact test), Q value = 4.4e-20
Table S304. Gene #47: '4p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 4P LOSS MUTATED | 147 | 79 | 90 |
| 4P LOSS WILD-TYPE | 105 | 220 | 336 |
Figure S304. Get High-res Image Gene #47: '4p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 2.02e-20 (Fisher's exact test), Q value = 1.8e-17
Table S305. Gene #47: '4p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 4P LOSS MUTATED | 67 | 34 | 115 |
| 4P LOSS WILD-TYPE | 183 | 185 | 83 |
Figure S305. Get High-res Image Gene #47: '4p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 8.08e-17 (Fisher's exact test), Q value = 7.1e-14
Table S306. Gene #47: '4p loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 4P LOSS MUTATED | 89 | 31 | 96 |
| 4P LOSS WILD-TYPE | 56 | 146 | 249 |
Figure S306. Get High-res Image Gene #47: '4p loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1.12e-07 (Chi-square test), Q value = 7.2e-05
Table S307. Gene #48: '4q loss' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 4Q LOSS MUTATED | 4 | 8 | 24 | 46 | 21 | 36 | 7 | 7 |
| 4Q LOSS WILD-TYPE | 17 | 28 | 95 | 50 | 88 | 36 | 13 | 33 |
Figure S307. Get High-res Image Gene #48: '4q loss' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 9.7e-08 (Fisher's exact test), Q value = 6.3e-05
Table S308. Gene #48: '4q loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 4Q LOSS MUTATED | 20 | 61 | 72 |
| 4Q LOSS WILD-TYPE | 102 | 64 | 194 |
Figure S308. Get High-res Image Gene #48: '4q loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 7.72e-29 (Chi-square test), Q value = 7.3e-26
Table S309. Gene #48: '4q loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 4Q LOSS MUTATED | 47 | 62 | 45 | 128 | 12 |
| 4Q LOSS WILD-TYPE | 324 | 196 | 52 | 108 | 33 |
Figure S309. Get High-res Image Gene #48: '4q loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 3.62e-11 (Chi-square test), Q value = 2.8e-08
Table S310. Gene #48: '4q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 4Q LOSS MUTATED | 65 | 32 | 32 | 30 | 8 | 27 |
| 4Q LOSS WILD-TYPE | 51 | 123 | 76 | 109 | 47 | 85 |
Figure S310. Get High-res Image Gene #48: '4q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 0.00036 (Fisher's exact test), Q value = 0.15
Table S311. Gene #48: '4q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 147 | 133 | 117 |
| 4Q LOSS MUTATED | 64 | 35 | 26 |
| 4Q LOSS WILD-TYPE | 83 | 98 | 91 |
Figure S311. Get High-res Image Gene #48: '4q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
P value = 6.79e-20 (Fisher's exact test), Q value = 6.1e-17
Table S312. Gene #48: '4q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 4Q LOSS MUTATED | 135 | 21 | 135 |
| 4Q LOSS WILD-TYPE | 138 | 165 | 407 |
Figure S312. Get High-res Image Gene #48: '4q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 1.05e-17 (Fisher's exact test), Q value = 9.4e-15
Table S313. Gene #48: '4q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 4Q LOSS MUTATED | 118 | 120 | 53 |
| 4Q LOSS WILD-TYPE | 115 | 319 | 276 |
Figure S313. Get High-res Image Gene #48: '4q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 1.29e-12 (Fisher's exact test), Q value = 1e-09
Table S314. Gene #48: '4q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 4Q LOSS MUTATED | 106 | 46 | 127 |
| 4Q LOSS WILD-TYPE | 292 | 241 | 165 |
Figure S314. Get High-res Image Gene #48: '4q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 2.24e-14 (Fisher's exact test), Q value = 1.9e-11
Table S315. Gene #48: '4q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 4Q LOSS MUTATED | 122 | 70 | 87 |
| 4Q LOSS WILD-TYPE | 130 | 229 | 339 |
Figure S315. Get High-res Image Gene #48: '4q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 4.43e-13 (Fisher's exact test), Q value = 3.6e-10
Table S316. Gene #48: '4q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 4Q LOSS MUTATED | 62 | 31 | 93 |
| 4Q LOSS WILD-TYPE | 188 | 188 | 105 |
Figure S316. Get High-res Image Gene #48: '4q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 1.85e-09 (Fisher's exact test), Q value = 1.4e-06
Table S317. Gene #48: '4q loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 4Q LOSS MUTATED | 69 | 28 | 89 |
| 4Q LOSS WILD-TYPE | 76 | 149 | 256 |
Figure S317. Get High-res Image Gene #48: '4q loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 6.42e-17 (Chi-square test), Q value = 5.6e-14
Table S318. Gene #49: '5p loss' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 5P LOSS MUTATED | 1 | 2 | 8 | 42 | 5 | 11 | 1 | 2 |
| 5P LOSS WILD-TYPE | 20 | 34 | 111 | 54 | 104 | 61 | 19 | 38 |
Figure S318. Get High-res Image Gene #49: '5p loss' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 1.72e-12 (Fisher's exact test), Q value = 1.4e-09
Table S319. Gene #49: '5p loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 5P LOSS MUTATED | 6 | 44 | 22 |
| 5P LOSS WILD-TYPE | 116 | 81 | 244 |
Figure S319. Get High-res Image Gene #49: '5p loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 4.32e-35 (Chi-square test), Q value = 4.1e-32
Table S320. Gene #49: '5p loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 5P LOSS MUTATED | 16 | 17 | 4 | 89 | 6 |
| 5P LOSS WILD-TYPE | 355 | 241 | 93 | 147 | 39 |
Figure S320. Get High-res Image Gene #49: '5p loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 9.63e-23 (Chi-square test), Q value = 8.9e-20
Table S321. Gene #49: '5p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 5P LOSS MUTATED | 48 | 3 | 8 | 12 | 1 | 15 |
| 5P LOSS WILD-TYPE | 68 | 152 | 100 | 127 | 54 | 97 |
Figure S321. Get High-res Image Gene #49: '5p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 6.63e-08 (Fisher's exact test), Q value = 4.4e-05
Table S322. Gene #49: '5p loss' versus Molecular Subtype #5: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 147 | 133 | 117 |
| 5P LOSS MUTATED | 43 | 9 | 9 |
| 5P LOSS WILD-TYPE | 104 | 124 | 108 |
Figure S322. Get High-res Image Gene #49: '5p loss' versus Molecular Subtype #5: 'RPPA_CNMF'
P value = 6.96e-10 (Fisher's exact test), Q value = 5.2e-07
Table S323. Gene #49: '5p loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 161 | 110 | 126 |
| 5P LOSS MUTATED | 11 | 8 | 42 |
| 5P LOSS WILD-TYPE | 150 | 102 | 84 |
Figure S323. Get High-res Image Gene #49: '5p loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
P value = 2.62e-26 (Fisher's exact test), Q value = 2.4e-23
Table S324. Gene #49: '5p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 5P LOSS MUTATED | 90 | 5 | 37 |
| 5P LOSS WILD-TYPE | 183 | 181 | 505 |
Figure S324. Get High-res Image Gene #49: '5p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 8.04e-27 (Fisher's exact test), Q value = 7.5e-24
Table S325. Gene #49: '5p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 5P LOSS MUTATED | 83 | 37 | 12 |
| 5P LOSS WILD-TYPE | 150 | 402 | 317 |
Figure S325. Get High-res Image Gene #49: '5p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 5.43e-25 (Fisher's exact test), Q value = 5e-22
Table S326. Gene #49: '5p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 5P LOSS MUTATED | 25 | 12 | 92 |
| 5P LOSS WILD-TYPE | 373 | 275 | 200 |
Figure S326. Get High-res Image Gene #49: '5p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 1.22e-28 (Fisher's exact test), Q value = 1.1e-25
Table S327. Gene #49: '5p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 5P LOSS MUTATED | 87 | 28 | 14 |
| 5P LOSS WILD-TYPE | 165 | 271 | 412 |
Figure S327. Get High-res Image Gene #49: '5p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 1.25e-18 (Fisher's exact test), Q value = 1.1e-15
Table S328. Gene #49: '5p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 5P LOSS MUTATED | 15 | 8 | 63 |
| 5P LOSS WILD-TYPE | 235 | 211 | 135 |
Figure S328. Get High-res Image Gene #49: '5p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 3.62e-18 (Fisher's exact test), Q value = 3.2e-15
Table S329. Gene #49: '5p loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 5P LOSS MUTATED | 53 | 6 | 27 |
| 5P LOSS WILD-TYPE | 92 | 171 | 318 |
Figure S329. Get High-res Image Gene #49: '5p loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 3.8e-26 (Chi-square test), Q value = 3.5e-23
Table S330. Gene #50: '5q loss' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 5Q LOSS MUTATED | 2 | 4 | 14 | 61 | 4 | 20 | 5 | 3 |
| 5Q LOSS WILD-TYPE | 19 | 32 | 105 | 35 | 105 | 52 | 15 | 37 |
Figure S330. Get High-res Image Gene #50: '5q loss' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 1e-20 (Fisher's exact test), Q value = 9.1e-18
Table S331. Gene #50: '5q loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 5Q LOSS MUTATED | 10 | 68 | 35 |
| 5Q LOSS WILD-TYPE | 112 | 57 | 231 |
Figure S331. Get High-res Image Gene #50: '5q loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 1.62e-75 (Chi-square test), Q value = 1.6e-72
Table S332. Gene #50: '5q loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 5Q LOSS MUTATED | 21 | 26 | 5 | 153 | 10 |
| 5Q LOSS WILD-TYPE | 350 | 232 | 92 | 83 | 35 |
Figure S332. Get High-res Image Gene #50: '5q loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 5.35e-46 (Chi-square test), Q value = 5.1e-43
Table S333. Gene #50: '5q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 5Q LOSS MUTATED | 82 | 3 | 11 | 21 | 4 | 24 |
| 5Q LOSS WILD-TYPE | 34 | 152 | 97 | 118 | 51 | 88 |
Figure S333. Get High-res Image Gene #50: '5q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 1.2e-13 (Fisher's exact test), Q value = 1e-10
Table S334. Gene #50: '5q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 147 | 133 | 117 |
| 5Q LOSS MUTATED | 67 | 11 | 18 |
| 5Q LOSS WILD-TYPE | 80 | 122 | 99 |
Figure S334. Get High-res Image Gene #50: '5q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
P value = 1.18e-13 (Fisher's exact test), Q value = 9.8e-11
Table S335. Gene #50: '5q loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 161 | 110 | 126 |
| 5Q LOSS MUTATED | 21 | 13 | 62 |
| 5Q LOSS WILD-TYPE | 140 | 97 | 64 |
Figure S335. Get High-res Image Gene #50: '5q loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
P value = 1.22e-49 (Fisher's exact test), Q value = 1.2e-46
Table S336. Gene #50: '5q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 5Q LOSS MUTATED | 148 | 8 | 59 |
| 5Q LOSS WILD-TYPE | 125 | 178 | 483 |
Figure S336. Get High-res Image Gene #50: '5q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 4.74e-52 (Fisher's exact test), Q value = 4.5e-49
Table S337. Gene #50: '5q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 5Q LOSS MUTATED | 138 | 57 | 20 |
| 5Q LOSS WILD-TYPE | 95 | 382 | 309 |
Figure S337. Get High-res Image Gene #50: '5q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 4.44e-51 (Fisher's exact test), Q value = 4.2e-48
Table S338. Gene #50: '5q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 5Q LOSS MUTATED | 37 | 17 | 154 |
| 5Q LOSS WILD-TYPE | 361 | 270 | 138 |
Figure S338. Get High-res Image Gene #50: '5q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 1.4e-52 (Fisher's exact test), Q value = 1.3e-49
Table S339. Gene #50: '5q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 5Q LOSS MUTATED | 142 | 42 | 24 |
| 5Q LOSS WILD-TYPE | 110 | 257 | 402 |
Figure S339. Get High-res Image Gene #50: '5q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 2.22e-34 (Fisher's exact test), Q value = 2.1e-31
Table S340. Gene #50: '5q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 5Q LOSS MUTATED | 25 | 13 | 104 |
| 5Q LOSS WILD-TYPE | 225 | 206 | 94 |
Figure S340. Get High-res Image Gene #50: '5q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 1.14e-33 (Fisher's exact test), Q value = 1.1e-30
Table S341. Gene #50: '5q loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 5Q LOSS MUTATED | 88 | 13 | 41 |
| 5Q LOSS WILD-TYPE | 57 | 164 | 304 |
Figure S341. Get High-res Image Gene #50: '5q loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 6.69e-11 (Chi-square test), Q value = 5.2e-08
Table S342. Gene #51: '6p loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 6P LOSS MUTATED | 39 | 79 | 17 | 26 | 12 |
| 6P LOSS WILD-TYPE | 332 | 179 | 80 | 210 | 33 |
Figure S342. Get High-res Image Gene #51: '6p loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 0.000475 (Chi-square test), Q value = 0.2
Table S343. Gene #51: '6p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 6P LOSS MUTATED | 13 | 18 | 18 | 39 | 4 | 20 |
| 6P LOSS WILD-TYPE | 103 | 137 | 90 | 100 | 51 | 92 |
Figure S343. Get High-res Image Gene #51: '6p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 0.000101 (Fisher's exact test), Q value = 0.05
Table S344. Gene #51: '6p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 6P LOSS MUTATED | 25 | 100 | 47 |
| 6P LOSS WILD-TYPE | 208 | 339 | 282 |
Figure S344. Get High-res Image Gene #51: '6p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 0.00019 (Fisher's exact test), Q value = 0.089
Table S345. Gene #52: '6q loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 6Q LOSS MUTATED | 35 | 15 | 80 |
| 6Q LOSS WILD-TYPE | 87 | 110 | 186 |
Figure S345. Get High-res Image Gene #52: '6q loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 2.73e-16 (Chi-square test), Q value = 2.4e-13
Table S346. Gene #52: '6q loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 6Q LOSS MUTATED | 67 | 111 | 25 | 32 | 20 |
| 6Q LOSS WILD-TYPE | 304 | 147 | 72 | 204 | 25 |
Figure S346. Get High-res Image Gene #52: '6q loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 5.57e-05 (Chi-square test), Q value = 0.029
Table S347. Gene #52: '6q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 6Q LOSS MUTATED | 21 | 41 | 27 | 57 | 7 | 23 |
| 6Q LOSS WILD-TYPE | 95 | 114 | 81 | 82 | 48 | 89 |
Figure S347. Get High-res Image Gene #52: '6q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 0.000185 (Fisher's exact test), Q value = 0.086
Table S348. Gene #52: '6q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 6Q LOSS MUTATED | 45 | 49 | 160 |
| 6Q LOSS WILD-TYPE | 228 | 137 | 382 |
Figure S348. Get High-res Image Gene #52: '6q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 0.000125 (Fisher's exact test), Q value = 0.06
Table S349. Gene #52: '6q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 6Q LOSS MUTATED | 37 | 134 | 83 |
| 6Q LOSS WILD-TYPE | 196 | 305 | 246 |
Figure S349. Get High-res Image Gene #52: '6q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 6.05e-06 (Fisher's exact test), Q value = 0.0034
Table S350. Gene #52: '6q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 6Q LOSS MUTATED | 38 | 98 | 113 |
| 6Q LOSS WILD-TYPE | 214 | 201 | 313 |
Figure S350. Get High-res Image Gene #52: '6q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 8.19e-10 (Chi-square test), Q value = 6e-07
Table S351. Gene #53: '7p loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 7P LOSS MUTATED | 11 | 37 | 7 | 46 | 4 |
| 7P LOSS WILD-TYPE | 360 | 221 | 90 | 190 | 41 |
Figure S351. Get High-res Image Gene #53: '7p loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 7.1e-05 (Chi-square test), Q value = 0.036
Table S352. Gene #53: '7p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 7P LOSS MUTATED | 23 | 7 | 11 | 18 | 1 | 6 |
| 7P LOSS WILD-TYPE | 93 | 148 | 97 | 121 | 54 | 106 |
Figure S352. Get High-res Image Gene #53: '7p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 1.16e-05 (Fisher's exact test), Q value = 0.0065
Table S353. Gene #53: '7p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 7P LOSS MUTATED | 45 | 6 | 53 |
| 7P LOSS WILD-TYPE | 228 | 180 | 489 |
Figure S353. Get High-res Image Gene #53: '7p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 2.05e-05 (Fisher's exact test), Q value = 0.011
Table S354. Gene #53: '7p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 7P LOSS MUTATED | 36 | 53 | 15 |
| 7P LOSS WILD-TYPE | 197 | 386 | 314 |
Figure S354. Get High-res Image Gene #53: '7p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 2.25e-08 (Fisher's exact test), Q value = 1.5e-05
Table S355. Gene #53: '7p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 7P LOSS MUTATED | 37 | 10 | 53 |
| 7P LOSS WILD-TYPE | 361 | 277 | 239 |
Figure S355. Get High-res Image Gene #53: '7p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 3.51e-08 (Fisher's exact test), Q value = 2.4e-05
Table S356. Gene #53: '7p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 7P LOSS MUTATED | 43 | 39 | 18 |
| 7P LOSS WILD-TYPE | 209 | 260 | 408 |
Figure S356. Get High-res Image Gene #53: '7p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 0.000122 (Fisher's exact test), Q value = 0.059
Table S357. Gene #53: '7p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 7P LOSS MUTATED | 17 | 9 | 31 |
| 7P LOSS WILD-TYPE | 233 | 210 | 167 |
Figure S357. Get High-res Image Gene #53: '7p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 2.9e-05 (Fisher's exact test), Q value = 0.015
Table S358. Gene #53: '7p loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 7P LOSS MUTATED | 25 | 5 | 27 |
| 7P LOSS WILD-TYPE | 120 | 172 | 318 |
Figure S358. Get High-res Image Gene #53: '7p loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1.31e-05 (Chi-square test), Q value = 0.0072
Table S359. Gene #54: '7q loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 7Q LOSS MUTATED | 19 | 45 | 11 | 35 | 3 |
| 7Q LOSS WILD-TYPE | 352 | 213 | 86 | 201 | 42 |
Figure S359. Get High-res Image Gene #54: '7q loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 0.000155 (Fisher's exact test), Q value = 0.073
Table S360. Gene #54: '7q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 7Q LOSS MUTATED | 22 | 69 | 21 |
| 7Q LOSS WILD-TYPE | 211 | 370 | 308 |
Figure S360. Get High-res Image Gene #54: '7q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 0.000198 (Fisher's exact test), Q value = 0.092
Table S361. Gene #54: '7q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 7Q LOSS MUTATED | 50 | 15 | 44 |
| 7Q LOSS WILD-TYPE | 348 | 272 | 248 |
Figure S361. Get High-res Image Gene #54: '7q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 7.11e-05 (Fisher's exact test), Q value = 0.036
Table S362. Gene #54: '7q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 7Q LOSS MUTATED | 35 | 47 | 27 |
| 7Q LOSS WILD-TYPE | 217 | 252 | 399 |
Figure S362. Get High-res Image Gene #54: '7q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 4.52e-05 (Chi-square test), Q value = 0.024
Table S363. Gene #55: '8p loss' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 8P LOSS MUTATED | 5 | 11 | 56 | 45 | 22 | 37 | 11 | 17 |
| 8P LOSS WILD-TYPE | 16 | 25 | 63 | 51 | 87 | 35 | 9 | 23 |
Figure S363. Get High-res Image Gene #55: '8p loss' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 1.65e-18 (Chi-square test), Q value = 1.5e-15
Table S364. Gene #55: '8p loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 8P LOSS MUTATED | 83 | 126 | 19 | 126 | 17 |
| 8P LOSS WILD-TYPE | 288 | 132 | 78 | 110 | 28 |
Figure S364. Get High-res Image Gene #55: '8p loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 3.86e-07 (Chi-square test), Q value = 0.00024
Table S365. Gene #55: '8p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 8P LOSS MUTATED | 52 | 33 | 40 | 69 | 10 | 37 |
| 8P LOSS WILD-TYPE | 64 | 122 | 68 | 70 | 45 | 75 |
Figure S365. Get High-res Image Gene #55: '8p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 2.39e-06 (Fisher's exact test), Q value = 0.0014
Table S366. Gene #55: '8p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 8P LOSS MUTATED | 126 | 43 | 200 |
| 8P LOSS WILD-TYPE | 147 | 143 | 342 |
Figure S366. Get High-res Image Gene #55: '8p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 3.94e-05 (Fisher's exact test), Q value = 0.021
Table S367. Gene #55: '8p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 8P LOSS MUTATED | 107 | 170 | 92 |
| 8P LOSS WILD-TYPE | 126 | 269 | 237 |
Figure S367. Get High-res Image Gene #55: '8p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 6.61e-07 (Fisher's exact test), Q value = 4e-04
Table S368. Gene #55: '8p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 8P LOSS MUTATED | 152 | 74 | 137 |
| 8P LOSS WILD-TYPE | 246 | 213 | 155 |
Figure S368. Get High-res Image Gene #55: '8p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 1.3e-07 (Fisher's exact test), Q value = 8.3e-05
Table S369. Gene #55: '8p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 8P LOSS MUTATED | 121 | 124 | 118 |
| 8P LOSS WILD-TYPE | 131 | 175 | 308 |
Figure S369. Get High-res Image Gene #55: '8p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 4.74e-05 (Fisher's exact test), Q value = 0.025
Table S370. Gene #55: '8p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 8P LOSS MUTATED | 96 | 55 | 90 |
| 8P LOSS WILD-TYPE | 154 | 164 | 108 |
Figure S370. Get High-res Image Gene #55: '8p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 1.92e-05 (Chi-square test), Q value = 0.01
Table S371. Gene #57: '9p loss' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 9P LOSS MUTATED | 7 | 10 | 53 | 31 | 18 | 33 | 9 | 6 |
| 9P LOSS WILD-TYPE | 14 | 26 | 66 | 65 | 91 | 39 | 11 | 34 |
Figure S371. Get High-res Image Gene #57: '9p loss' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 0.000177 (Fisher's exact test), Q value = 0.083
Table S372. Gene #57: '9p loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 9P LOSS MUTATED | 22 | 42 | 103 |
| 9P LOSS WILD-TYPE | 100 | 83 | 163 |
Figure S372. Get High-res Image Gene #57: '9p loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 1.25e-36 (Chi-square test), Q value = 1.2e-33
Table S373. Gene #57: '9p loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 9P LOSS MUTATED | 36 | 143 | 16 | 93 | 9 |
| 9P LOSS WILD-TYPE | 335 | 115 | 81 | 143 | 36 |
Figure S373. Get High-res Image Gene #57: '9p loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 4.02e-15 (Chi-square test), Q value = 3.4e-12
Table S374. Gene #57: '9p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 9P LOSS MUTATED | 42 | 16 | 39 | 69 | 10 | 16 |
| 9P LOSS WILD-TYPE | 74 | 139 | 69 | 70 | 45 | 96 |
Figure S374. Get High-res Image Gene #57: '9p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 3.92e-09 (Fisher's exact test), Q value = 2.8e-06
Table S375. Gene #57: '9p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 9P LOSS MUTATED | 91 | 22 | 182 |
| 9P LOSS WILD-TYPE | 182 | 164 | 360 |
Figure S375. Get High-res Image Gene #57: '9p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 2.29e-10 (Fisher's exact test), Q value = 1.7e-07
Table S376. Gene #57: '9p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 9P LOSS MUTATED | 76 | 165 | 54 |
| 9P LOSS WILD-TYPE | 157 | 274 | 275 |
Figure S376. Get High-res Image Gene #57: '9p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 4.6e-10 (Fisher's exact test), Q value = 3.4e-07
Table S377. Gene #57: '9p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 9P LOSS MUTATED | 133 | 44 | 110 |
| 9P LOSS WILD-TYPE | 265 | 243 | 182 |
Figure S377. Get High-res Image Gene #57: '9p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 2.5e-10 (Fisher's exact test), Q value = 1.9e-07
Table S378. Gene #57: '9p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 9P LOSS MUTATED | 97 | 111 | 79 |
| 9P LOSS WILD-TYPE | 155 | 188 | 347 |
Figure S378. Get High-res Image Gene #57: '9p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 4.13e-07 (Fisher's exact test), Q value = 0.00025
Table S379. Gene #57: '9p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 9P LOSS MUTATED | 72 | 35 | 78 |
| 9P LOSS WILD-TYPE | 178 | 184 | 120 |
Figure S379. Get High-res Image Gene #57: '9p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 0.000241 (Fisher's exact test), Q value = 0.11
Table S380. Gene #57: '9p loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 9P LOSS MUTATED | 48 | 29 | 108 |
| 9P LOSS WILD-TYPE | 97 | 148 | 237 |
Figure S380. Get High-res Image Gene #57: '9p loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 6.82e-05 (Chi-square test), Q value = 0.035
Table S381. Gene #58: '9q loss' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 9Q LOSS MUTATED | 7 | 5 | 42 | 41 | 19 | 23 | 8 | 4 |
| 9Q LOSS WILD-TYPE | 14 | 31 | 77 | 55 | 90 | 49 | 12 | 36 |
Figure S381. Get High-res Image Gene #58: '9q loss' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 3.55e-06 (Fisher's exact test), Q value = 0.002
Table S382. Gene #58: '9q loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 9Q LOSS MUTATED | 15 | 47 | 87 |
| 9Q LOSS WILD-TYPE | 107 | 78 | 179 |
Figure S382. Get High-res Image Gene #58: '9q loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 3.83e-26 (Chi-square test), Q value = 3.6e-23
Table S383. Gene #58: '9q loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 9Q LOSS MUTATED | 33 | 111 | 16 | 97 | 12 |
| 9Q LOSS WILD-TYPE | 338 | 147 | 81 | 139 | 33 |
Figure S383. Get High-res Image Gene #58: '9q loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 4.82e-14 (Chi-square test), Q value = 4e-11
Table S384. Gene #58: '9q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 9Q LOSS MUTATED | 50 | 15 | 30 | 58 | 5 | 18 |
| 9Q LOSS WILD-TYPE | 66 | 140 | 78 | 81 | 50 | 94 |
Figure S384. Get High-res Image Gene #58: '9q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 3.37e-06 (Fisher's exact test), Q value = 0.002
Table S385. Gene #58: '9q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 147 | 133 | 117 |
| 9Q LOSS MUTATED | 66 | 29 | 23 |
| 9Q LOSS WILD-TYPE | 81 | 104 | 94 |
Figure S385. Get High-res Image Gene #58: '9q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
P value = 0.000331 (Fisher's exact test), Q value = 0.14
Table S386. Gene #58: '9q loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 161 | 110 | 126 |
| 9Q LOSS MUTATED | 42 | 22 | 54 |
| 9Q LOSS WILD-TYPE | 119 | 88 | 72 |
Figure S386. Get High-res Image Gene #58: '9q loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
P value = 4.44e-13 (Fisher's exact test), Q value = 3.6e-10
Table S387. Gene #58: '9q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 9Q LOSS MUTATED | 103 | 15 | 149 |
| 9Q LOSS WILD-TYPE | 170 | 171 | 393 |
Figure S387. Get High-res Image Gene #58: '9q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 3.3e-12 (Fisher's exact test), Q value = 2.6e-09
Table S388. Gene #58: '9q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 9Q LOSS MUTATED | 87 | 137 | 43 |
| 9Q LOSS WILD-TYPE | 146 | 302 | 286 |
Figure S388. Get High-res Image Gene #58: '9q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 1.08e-12 (Fisher's exact test), Q value = 8.7e-10
Table S389. Gene #58: '9q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 9Q LOSS MUTATED | 101 | 38 | 117 |
| 9Q LOSS WILD-TYPE | 297 | 249 | 175 |
Figure S389. Get High-res Image Gene #58: '9q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 7.74e-15 (Fisher's exact test), Q value = 6.6e-12
Table S390. Gene #58: '9q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 9Q LOSS MUTATED | 106 | 88 | 62 |
| 9Q LOSS WILD-TYPE | 146 | 211 | 364 |
Figure S390. Get High-res Image Gene #58: '9q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 3.96e-08 (Fisher's exact test), Q value = 2.7e-05
Table S391. Gene #58: '9q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 9Q LOSS MUTATED | 54 | 33 | 78 |
| 9Q LOSS WILD-TYPE | 196 | 186 | 120 |
Figure S391. Get High-res Image Gene #58: '9q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 1.38e-06 (Fisher's exact test), Q value = 0.00082
Table S392. Gene #58: '9q loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 9Q LOSS MUTATED | 56 | 24 | 85 |
| 9Q LOSS WILD-TYPE | 89 | 153 | 260 |
Figure S392. Get High-res Image Gene #58: '9q loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1.28e-05 (Chi-square test), Q value = 0.0071
Table S393. Gene #59: '10p loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 10P LOSS MUTATED | 30 | 53 | 20 | 49 | 10 |
| 10P LOSS WILD-TYPE | 341 | 205 | 77 | 187 | 35 |
Figure S393. Get High-res Image Gene #59: '10p loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 0.000502 (Chi-square test), Q value = 0.21
Table S394. Gene #59: '10p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 10P LOSS MUTATED | 31 | 19 | 20 | 30 | 8 | 7 |
| 10P LOSS WILD-TYPE | 85 | 136 | 88 | 109 | 47 | 105 |
Figure S394. Get High-res Image Gene #59: '10p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 0.000256 (Fisher's exact test), Q value = 0.11
Table S395. Gene #59: '10p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 10P LOSS MUTATED | 54 | 13 | 93 |
| 10P LOSS WILD-TYPE | 219 | 173 | 449 |
Figure S395. Get High-res Image Gene #59: '10p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 2.32e-13 (Chi-square test), Q value = 1.9e-10
Table S396. Gene #60: '10q loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 10Q LOSS MUTATED | 31 | 69 | 21 | 79 | 14 |
| 10Q LOSS WILD-TYPE | 340 | 189 | 76 | 157 | 31 |
Figure S396. Get High-res Image Gene #60: '10q loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 4.18e-11 (Chi-square test), Q value = 3.3e-08
Table S397. Gene #60: '10q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 10Q LOSS MUTATED | 49 | 18 | 28 | 42 | 8 | 9 |
| 10Q LOSS WILD-TYPE | 67 | 137 | 80 | 97 | 47 | 103 |
Figure S397. Get High-res Image Gene #60: '10q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 3.11e-09 (Fisher's exact test), Q value = 2.3e-06
Table S398. Gene #60: '10q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 10Q LOSS MUTATED | 84 | 14 | 114 |
| 10Q LOSS WILD-TYPE | 189 | 172 | 428 |
Figure S398. Get High-res Image Gene #60: '10q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 6.04e-08 (Fisher's exact test), Q value = 4e-05
Table S399. Gene #60: '10q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 10Q LOSS MUTATED | 71 | 103 | 38 |
| 10Q LOSS WILD-TYPE | 162 | 336 | 291 |
Figure S399. Get High-res Image Gene #60: '10q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 0.000115 (Fisher's exact test), Q value = 0.055
Table S400. Gene #60: '10q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 10Q LOSS MUTATED | 77 | 44 | 86 |
| 10Q LOSS WILD-TYPE | 321 | 243 | 206 |
Figure S400. Get High-res Image Gene #60: '10q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 2.02e-07 (Fisher's exact test), Q value = 0.00013
Table S401. Gene #60: '10q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 10Q LOSS MUTATED | 80 | 68 | 59 |
| 10Q LOSS WILD-TYPE | 172 | 231 | 367 |
Figure S401. Get High-res Image Gene #60: '10q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 0.000447 (Fisher's exact test), Q value = 0.19
Table S402. Gene #60: '10q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 10Q LOSS MUTATED | 50 | 33 | 61 |
| 10Q LOSS WILD-TYPE | 200 | 186 | 137 |
Figure S402. Get High-res Image Gene #60: '10q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 3.23e-21 (Chi-square test), Q value = 2.9e-18
Table S403. Gene #61: '11p loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 11P LOSS MUTATED | 32 | 102 | 28 | 89 | 8 |
| 11P LOSS WILD-TYPE | 339 | 156 | 69 | 147 | 37 |
Figure S403. Get High-res Image Gene #61: '11p loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 1.08e-08 (Chi-square test), Q value = 7.5e-06
Table S404. Gene #61: '11p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 11P LOSS MUTATED | 43 | 17 | 35 | 50 | 10 | 16 |
| 11P LOSS WILD-TYPE | 73 | 138 | 73 | 89 | 45 | 96 |
Figure S404. Get High-res Image Gene #61: '11p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 1.63e-07 (Fisher's exact test), Q value = 1e-04
Table S405. Gene #61: '11p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 11P LOSS MUTATED | 93 | 22 | 144 |
| 11P LOSS WILD-TYPE | 180 | 164 | 398 |
Figure S405. Get High-res Image Gene #61: '11p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 1.17e-07 (Fisher's exact test), Q value = 7.6e-05
Table S406. Gene #61: '11p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 11P LOSS MUTATED | 78 | 131 | 50 |
| 11P LOSS WILD-TYPE | 155 | 308 | 279 |
Figure S406. Get High-res Image Gene #61: '11p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 5.87e-06 (Fisher's exact test), Q value = 0.0033
Table S407. Gene #61: '11p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 11P LOSS MUTATED | 94 | 50 | 102 |
| 11P LOSS WILD-TYPE | 304 | 237 | 190 |
Figure S407. Get High-res Image Gene #61: '11p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 3.53e-07 (Fisher's exact test), Q value = 0.00022
Table S408. Gene #61: '11p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 11P LOSS MUTATED | 86 | 88 | 72 |
| 11P LOSS WILD-TYPE | 166 | 211 | 354 |
Figure S408. Get High-res Image Gene #61: '11p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 2.84e-06 (Fisher's exact test), Q value = 0.0017
Table S409. Gene #61: '11p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 11P LOSS MUTATED | 60 | 32 | 71 |
| 11P LOSS WILD-TYPE | 190 | 187 | 127 |
Figure S409. Get High-res Image Gene #61: '11p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 0.000293 (Fisher's exact test), Q value = 0.13
Table S410. Gene #61: '11p loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 11P LOSS MUTATED | 50 | 27 | 86 |
| 11P LOSS WILD-TYPE | 95 | 150 | 259 |
Figure S410. Get High-res Image Gene #61: '11p loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.000217 (Chi-square test), Q value = 0.099
Table S411. Gene #62: '11q loss' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 11Q LOSS MUTATED | 5 | 16 | 64 | 28 | 26 | 28 | 6 | 15 |
| 11Q LOSS WILD-TYPE | 16 | 20 | 55 | 68 | 83 | 44 | 14 | 25 |
Figure S411. Get High-res Image Gene #62: '11q loss' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 3.11e-30 (Chi-square test), Q value = 2.9e-27
Table S412. Gene #62: '11q loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 11Q LOSS MUTATED | 60 | 160 | 36 | 84 | 10 |
| 11Q LOSS WILD-TYPE | 311 | 98 | 61 | 152 | 35 |
Figure S412. Get High-res Image Gene #62: '11q loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 1.13e-08 (Chi-square test), Q value = 7.9e-06
Table S413. Gene #62: '11q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 11Q LOSS MUTATED | 39 | 38 | 49 | 73 | 14 | 22 |
| 11Q LOSS WILD-TYPE | 77 | 117 | 59 | 66 | 41 | 90 |
Figure S413. Get High-res Image Gene #62: '11q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 0.000557 (Fisher's exact test), Q value = 0.23
Table S414. Gene #62: '11q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 11Q LOSS MUTATED | 86 | 47 | 216 |
| 11Q LOSS WILD-TYPE | 187 | 139 | 326 |
Figure S414. Get High-res Image Gene #62: '11q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 4.47e-06 (Fisher's exact test), Q value = 0.0026
Table S415. Gene #62: '11q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 11Q LOSS MUTATED | 83 | 136 | 118 |
| 11Q LOSS WILD-TYPE | 169 | 163 | 308 |
Figure S415. Get High-res Image Gene #62: '11q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 9.43e-08 (Chi-square test), Q value = 6.2e-05
Table S416. Gene #63: '12p loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 12P LOSS MUTATED | 33 | 38 | 12 | 60 | 1 |
| 12P LOSS WILD-TYPE | 338 | 220 | 85 | 176 | 44 |
Figure S416. Get High-res Image Gene #63: '12p loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 6.76e-08 (Chi-square test), Q value = 4.5e-05
Table S417. Gene #63: '12p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 12P LOSS MUTATED | 38 | 12 | 13 | 17 | 7 | 10 |
| 12P LOSS WILD-TYPE | 78 | 143 | 95 | 122 | 48 | 102 |
Figure S417. Get High-res Image Gene #63: '12p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 1.3e-09 (Fisher's exact test), Q value = 9.6e-07
Table S418. Gene #63: '12p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 12P LOSS MUTATED | 72 | 16 | 55 |
| 12P LOSS WILD-TYPE | 201 | 170 | 487 |
Figure S418. Get High-res Image Gene #63: '12p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 6.3e-07 (Fisher's exact test), Q value = 0.00039
Table S419. Gene #63: '12p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 12P LOSS MUTATED | 59 | 53 | 31 |
| 12P LOSS WILD-TYPE | 174 | 386 | 298 |
Figure S419. Get High-res Image Gene #63: '12p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 6.28e-08 (Fisher's exact test), Q value = 4.2e-05
Table S420. Gene #63: '12p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 12P LOSS MUTATED | 47 | 22 | 70 |
| 12P LOSS WILD-TYPE | 351 | 265 | 222 |
Figure S420. Get High-res Image Gene #63: '12p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 1.41e-08 (Fisher's exact test), Q value = 9.8e-06
Table S421. Gene #63: '12p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 12P LOSS MUTATED | 63 | 42 | 34 |
| 12P LOSS WILD-TYPE | 189 | 257 | 392 |
Figure S421. Get High-res Image Gene #63: '12p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 2.42e-06 (Fisher's exact test), Q value = 0.0014
Table S422. Gene #63: '12p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 12P LOSS MUTATED | 28 | 17 | 49 |
| 12P LOSS WILD-TYPE | 222 | 202 | 149 |
Figure S422. Get High-res Image Gene #63: '12p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 0.000318 (Fisher's exact test), Q value = 0.14
Table S423. Gene #63: '12p loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 12P LOSS MUTATED | 35 | 15 | 44 |
| 12P LOSS WILD-TYPE | 110 | 162 | 301 |
Figure S423. Get High-res Image Gene #63: '12p loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 5.14e-09 (Chi-square test), Q value = 3.7e-06
Table S424. Gene #64: '12q loss' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 12Q LOSS MUTATED | 2 | 4 | 7 | 32 | 5 | 7 | 2 | 3 |
| 12Q LOSS WILD-TYPE | 19 | 32 | 112 | 64 | 104 | 65 | 18 | 37 |
Figure S424. Get High-res Image Gene #64: '12q loss' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 4.1e-08 (Fisher's exact test), Q value = 2.8e-05
Table S425. Gene #64: '12q loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 12Q LOSS MUTATED | 8 | 35 | 19 |
| 12Q LOSS WILD-TYPE | 114 | 90 | 247 |
Figure S425. Get High-res Image Gene #64: '12q loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 8.11e-15 (Chi-square test), Q value = 6.9e-12
Table S426. Gene #64: '12q loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 12Q LOSS MUTATED | 24 | 21 | 11 | 66 | 2 |
| 12Q LOSS WILD-TYPE | 347 | 237 | 86 | 170 | 43 |
Figure S426. Get High-res Image Gene #64: '12q loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 1.35e-20 (Chi-square test), Q value = 1.2e-17
Table S427. Gene #64: '12q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 12Q LOSS MUTATED | 47 | 5 | 13 | 12 | 2 | 8 |
| 12Q LOSS WILD-TYPE | 69 | 150 | 95 | 127 | 53 | 104 |
Figure S427. Get High-res Image Gene #64: '12q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 0.000215 (Fisher's exact test), Q value = 0.098
Table S428. Gene #64: '12q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 147 | 133 | 117 |
| 12Q LOSS MUTATED | 32 | 9 | 9 |
| 12Q LOSS WILD-TYPE | 115 | 124 | 108 |
Figure S428. Get High-res Image Gene #64: '12q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
P value = 1.16e-05 (Fisher's exact test), Q value = 0.0065
Table S429. Gene #64: '12q loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 161 | 110 | 126 |
| 12Q LOSS MUTATED | 13 | 6 | 31 |
| 12Q LOSS WILD-TYPE | 148 | 104 | 95 |
Figure S429. Get High-res Image Gene #64: '12q loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
P value = 1.07e-17 (Fisher's exact test), Q value = 9.5e-15
Table S430. Gene #64: '12q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 12Q LOSS MUTATED | 77 | 12 | 34 |
| 12Q LOSS WILD-TYPE | 196 | 174 | 508 |
Figure S430. Get High-res Image Gene #64: '12q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 2.1e-16 (Fisher's exact test), Q value = 1.8e-13
Table S431. Gene #64: '12q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 12Q LOSS MUTATED | 69 | 32 | 22 |
| 12Q LOSS WILD-TYPE | 164 | 407 | 307 |
Figure S431. Get High-res Image Gene #64: '12q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 2.78e-14 (Fisher's exact test), Q value = 2.3e-11
Table S432. Gene #64: '12q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 12Q LOSS MUTATED | 26 | 18 | 74 |
| 12Q LOSS WILD-TYPE | 372 | 269 | 218 |
Figure S432. Get High-res Image Gene #64: '12q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 3.21e-15 (Fisher's exact test), Q value = 2.8e-12
Table S433. Gene #64: '12q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 12Q LOSS MUTATED | 69 | 24 | 25 |
| 12Q LOSS WILD-TYPE | 183 | 275 | 401 |
Figure S433. Get High-res Image Gene #64: '12q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 1.19e-12 (Fisher's exact test), Q value = 9.6e-10
Table S434. Gene #64: '12q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 12Q LOSS MUTATED | 19 | 13 | 58 |
| 12Q LOSS WILD-TYPE | 231 | 206 | 140 |
Figure S434. Get High-res Image Gene #64: '12q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 1.14e-10 (Fisher's exact test), Q value = 8.7e-08
Table S435. Gene #64: '12q loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 12Q LOSS MUTATED | 46 | 12 | 32 |
| 12Q LOSS WILD-TYPE | 99 | 165 | 313 |
Figure S435. Get High-res Image Gene #64: '12q loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 5.59e-05 (Chi-square test), Q value = 0.029
Table S436. Gene #65: '13q loss' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 13Q LOSS MUTATED | 7 | 14 | 62 | 51 | 30 | 38 | 9 | 8 |
| 13Q LOSS WILD-TYPE | 14 | 22 | 57 | 45 | 79 | 34 | 11 | 32 |
Figure S436. Get High-res Image Gene #65: '13q loss' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 6.32e-06 (Fisher's exact test), Q value = 0.0036
Table S437. Gene #65: '13q loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 13Q LOSS MUTATED | 31 | 69 | 119 |
| 13Q LOSS WILD-TYPE | 91 | 56 | 147 |
Figure S437. Get High-res Image Gene #65: '13q loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 4.63e-24 (Chi-square test), Q value = 4.3e-21
Table S438. Gene #65: '13q loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 13Q LOSS MUTATED | 70 | 141 | 52 | 119 | 26 |
| 13Q LOSS WILD-TYPE | 301 | 117 | 45 | 117 | 19 |
Figure S438. Get High-res Image Gene #65: '13q loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 1.96e-08 (Chi-square test), Q value = 1.3e-05
Table S439. Gene #65: '13q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 13Q LOSS MUTATED | 68 | 43 | 52 | 64 | 11 | 35 |
| 13Q LOSS WILD-TYPE | 48 | 112 | 56 | 75 | 44 | 77 |
Figure S439. Get High-res Image Gene #65: '13q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 1.92e-08 (Fisher's exact test), Q value = 1.3e-05
Table S440. Gene #65: '13q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 13Q LOSS MUTATED | 141 | 45 | 219 |
| 13Q LOSS WILD-TYPE | 132 | 141 | 323 |
Figure S440. Get High-res Image Gene #65: '13q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 3.62e-09 (Fisher's exact test), Q value = 2.6e-06
Table S441. Gene #65: '13q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 13Q LOSS MUTATED | 124 | 189 | 92 |
| 13Q LOSS WILD-TYPE | 109 | 250 | 237 |
Figure S441. Get High-res Image Gene #65: '13q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 5.96e-08 (Fisher's exact test), Q value = 4e-05
Table S442. Gene #65: '13q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 13Q LOSS MUTATED | 169 | 81 | 150 |
| 13Q LOSS WILD-TYPE | 229 | 206 | 142 |
Figure S442. Get High-res Image Gene #65: '13q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 1.39e-07 (Fisher's exact test), Q value = 8.9e-05
Table S443. Gene #65: '13q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 13Q LOSS MUTATED | 135 | 129 | 136 |
| 13Q LOSS WILD-TYPE | 117 | 170 | 290 |
Figure S443. Get High-res Image Gene #65: '13q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 2.18e-07 (Fisher's exact test), Q value = 0.00014
Table S444. Gene #65: '13q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 13Q LOSS MUTATED | 89 | 63 | 108 |
| 13Q LOSS WILD-TYPE | 161 | 156 | 90 |
Figure S444. Get High-res Image Gene #65: '13q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 0.000194 (Fisher's exact test), Q value = 0.09
Table S445. Gene #65: '13q loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 13Q LOSS MUTATED | 77 | 55 | 128 |
| 13Q LOSS WILD-TYPE | 68 | 122 | 217 |
Figure S445. Get High-res Image Gene #65: '13q loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1.2e-14 (Chi-square test), Q value = 1e-11
Table S446. Gene #66: '14q loss' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 14Q LOSS MUTATED | 3 | 1 | 30 | 50 | 7 | 14 | 9 | 5 |
| 14Q LOSS WILD-TYPE | 18 | 35 | 89 | 46 | 102 | 58 | 11 | 35 |
Figure S446. Get High-res Image Gene #66: '14q loss' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 5.9e-10 (Fisher's exact test), Q value = 4.4e-07
Table S447. Gene #66: '14q loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 14Q LOSS MUTATED | 14 | 56 | 49 |
| 14Q LOSS WILD-TYPE | 108 | 69 | 217 |
Figure S447. Get High-res Image Gene #66: '14q loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 4.64e-35 (Chi-square test), Q value = 4.4e-32
Table S448. Gene #66: '14q loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 14Q LOSS MUTATED | 32 | 53 | 19 | 127 | 9 |
| 14Q LOSS WILD-TYPE | 339 | 205 | 78 | 109 | 36 |
Figure S448. Get High-res Image Gene #66: '14q loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 1.67e-20 (Chi-square test), Q value = 1.5e-17
Table S449. Gene #66: '14q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 14Q LOSS MUTATED | 68 | 13 | 28 | 31 | 7 | 20 |
| 14Q LOSS WILD-TYPE | 48 | 142 | 80 | 108 | 48 | 92 |
Figure S449. Get High-res Image Gene #66: '14q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 5.79e-06 (Fisher's exact test), Q value = 0.0033
Table S450. Gene #66: '14q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 147 | 133 | 117 |
| 14Q LOSS MUTATED | 54 | 16 | 25 |
| 14Q LOSS WILD-TYPE | 93 | 117 | 92 |
Figure S450. Get High-res Image Gene #66: '14q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
P value = 4.45e-06 (Fisher's exact test), Q value = 0.0026
Table S451. Gene #66: '14q loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 161 | 110 | 126 |
| 14Q LOSS MUTATED | 24 | 21 | 50 |
| 14Q LOSS WILD-TYPE | 137 | 89 | 76 |
Figure S451. Get High-res Image Gene #66: '14q loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
P value = 1.61e-22 (Fisher's exact test), Q value = 1.5e-19
Table S452. Gene #66: '14q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 14Q LOSS MUTATED | 125 | 17 | 97 |
| 14Q LOSS WILD-TYPE | 148 | 169 | 445 |
Figure S452. Get High-res Image Gene #66: '14q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 8.56e-24 (Fisher's exact test), Q value = 7.9e-21
Table S453. Gene #66: '14q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 14Q LOSS MUTATED | 115 | 85 | 39 |
| 14Q LOSS WILD-TYPE | 118 | 354 | 290 |
Figure S453. Get High-res Image Gene #66: '14q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 2.3e-21 (Fisher's exact test), Q value = 2.1e-18
Table S454. Gene #66: '14q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 14Q LOSS MUTATED | 63 | 38 | 130 |
| 14Q LOSS WILD-TYPE | 335 | 249 | 162 |
Figure S454. Get High-res Image Gene #66: '14q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 1.63e-23 (Fisher's exact test), Q value = 1.5e-20
Table S455. Gene #66: '14q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 14Q LOSS MUTATED | 121 | 53 | 57 |
| 14Q LOSS WILD-TYPE | 131 | 246 | 369 |
Figure S455. Get High-res Image Gene #66: '14q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 2.32e-17 (Fisher's exact test), Q value = 2.1e-14
Table S456. Gene #66: '14q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 14Q LOSS MUTATED | 44 | 29 | 96 |
| 14Q LOSS WILD-TYPE | 206 | 190 | 102 |
Figure S456. Get High-res Image Gene #66: '14q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 1.04e-15 (Fisher's exact test), Q value = 9e-13
Table S457. Gene #66: '14q loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 14Q LOSS MUTATED | 77 | 28 | 64 |
| 14Q LOSS WILD-TYPE | 68 | 149 | 281 |
Figure S457. Get High-res Image Gene #66: '14q loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1.95e-05 (Chi-square test), Q value = 0.011
Table S458. Gene #67: '15q loss' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 15Q LOSS MUTATED | 4 | 9 | 31 | 45 | 22 | 33 | 8 | 6 |
| 15Q LOSS WILD-TYPE | 17 | 27 | 88 | 51 | 87 | 39 | 12 | 34 |
Figure S458. Get High-res Image Gene #67: '15q loss' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 1.14e-05 (Fisher's exact test), Q value = 0.0064
Table S459. Gene #67: '15q loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 15Q LOSS MUTATED | 20 | 55 | 83 |
| 15Q LOSS WILD-TYPE | 102 | 70 | 183 |
Figure S459. Get High-res Image Gene #67: '15q loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 5.12e-31 (Chi-square test), Q value = 4.8e-28
Table S460. Gene #67: '15q loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 15Q LOSS MUTATED | 37 | 78 | 47 | 126 | 14 |
| 15Q LOSS WILD-TYPE | 334 | 180 | 50 | 110 | 31 |
Figure S460. Get High-res Image Gene #67: '15q loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 5.11e-13 (Chi-square test), Q value = 4.2e-10
Table S461. Gene #67: '15q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 15Q LOSS MUTATED | 66 | 24 | 35 | 48 | 10 | 22 |
| 15Q LOSS WILD-TYPE | 50 | 131 | 73 | 91 | 45 | 90 |
Figure S461. Get High-res Image Gene #67: '15q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 1.1e-15 (Fisher's exact test), Q value = 9.5e-13
Table S462. Gene #67: '15q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 15Q LOSS MUTATED | 126 | 21 | 153 |
| 15Q LOSS WILD-TYPE | 147 | 165 | 389 |
Figure S462. Get High-res Image Gene #67: '15q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 2.92e-13 (Fisher's exact test), Q value = 2.4e-10
Table S463. Gene #67: '15q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 15Q LOSS MUTATED | 106 | 140 | 54 |
| 15Q LOSS WILD-TYPE | 127 | 299 | 275 |
Figure S463. Get High-res Image Gene #67: '15q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 3.14e-14 (Fisher's exact test), Q value = 2.6e-11
Table S464. Gene #67: '15q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 15Q LOSS MUTATED | 109 | 46 | 133 |
| 15Q LOSS WILD-TYPE | 289 | 241 | 159 |
Figure S464. Get High-res Image Gene #67: '15q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 5.21e-13 (Fisher's exact test), Q value = 4.3e-10
Table S465. Gene #67: '15q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 15Q LOSS MUTATED | 121 | 79 | 88 |
| 15Q LOSS WILD-TYPE | 131 | 220 | 338 |
Figure S465. Get High-res Image Gene #67: '15q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 2.27e-10 (Fisher's exact test), Q value = 1.7e-07
Table S466. Gene #67: '15q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 15Q LOSS MUTATED | 72 | 33 | 88 |
| 15Q LOSS WILD-TYPE | 178 | 186 | 110 |
Figure S466. Get High-res Image Gene #67: '15q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 6.46e-09 (Fisher's exact test), Q value = 4.6e-06
Table S467. Gene #67: '15q loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 15Q LOSS MUTATED | 69 | 29 | 95 |
| 15Q LOSS WILD-TYPE | 76 | 148 | 250 |
Figure S467. Get High-res Image Gene #67: '15q loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.000206 (Chi-square test), Q value = 0.095
Table S468. Gene #68: '16p loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 16P LOSS MUTATED | 44 | 36 | 11 | 59 | 6 |
| 16P LOSS WILD-TYPE | 327 | 222 | 86 | 177 | 39 |
Figure S468. Get High-res Image Gene #68: '16p loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 0.000177 (Fisher's exact test), Q value = 0.083
Table S469. Gene #68: '16p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 16P LOSS MUTATED | 47 | 39 | 68 |
| 16P LOSS WILD-TYPE | 351 | 248 | 224 |
Figure S469. Get High-res Image Gene #68: '16p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 0.000129 (Fisher's exact test), Q value = 0.062
Table S470. Gene #68: '16p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 16P LOSS MUTATED | 27 | 32 | 51 |
| 16P LOSS WILD-TYPE | 223 | 187 | 147 |
Figure S470. Get High-res Image Gene #68: '16p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 3.87e-09 (Chi-square test), Q value = 2.8e-06
Table S471. Gene #69: '16q loss' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 16Q LOSS MUTATED | 12 | 21 | 62 | 28 | 82 | 40 | 12 | 31 |
| 16Q LOSS WILD-TYPE | 9 | 15 | 57 | 68 | 27 | 32 | 8 | 9 |
Figure S471. Get High-res Image Gene #69: '16q loss' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 2.06e-10 (Fisher's exact test), Q value = 1.6e-07
Table S472. Gene #69: '16q loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 16Q LOSS MUTATED | 79 | 38 | 171 |
| 16Q LOSS WILD-TYPE | 43 | 87 | 95 |
Figure S472. Get High-res Image Gene #69: '16q loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 3.9e-10 (Chi-square test), Q value = 2.9e-07
Table S473. Gene #69: '16q loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 16Q LOSS MUTATED | 224 | 140 | 76 | 93 | 28 |
| 16Q LOSS WILD-TYPE | 147 | 118 | 21 | 143 | 17 |
Figure S473. Get High-res Image Gene #69: '16q loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 4.28e-12 (Chi-square test), Q value = 3.4e-09
Table S474. Gene #69: '16q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 16Q LOSS MUTATED | 42 | 119 | 74 | 64 | 26 | 54 |
| 16Q LOSS WILD-TYPE | 74 | 36 | 34 | 75 | 29 | 58 |
Figure S474. Get High-res Image Gene #69: '16q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 0.000111 (Fisher's exact test), Q value = 0.054
Table S475. Gene #69: '16q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 147 | 133 | 117 |
| 16Q LOSS MUTATED | 59 | 86 | 68 |
| 16Q LOSS WILD-TYPE | 88 | 47 | 49 |
Figure S475. Get High-res Image Gene #69: '16q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
P value = 1.09e-06 (Fisher's exact test), Q value = 0.00066
Table S476. Gene #69: '16q loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 161 | 110 | 126 |
| 16Q LOSS MUTATED | 105 | 64 | 44 |
| 16Q LOSS WILD-TYPE | 56 | 46 | 82 |
Figure S476. Get High-res Image Gene #69: '16q loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
P value = 3.97e-16 (Fisher's exact test), Q value = 3.4e-13
Table S477. Gene #69: '16q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 16Q LOSS MUTATED | 94 | 126 | 338 |
| 16Q LOSS WILD-TYPE | 179 | 60 | 204 |
Figure S477. Get High-res Image Gene #69: '16q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 4.88e-17 (Fisher's exact test), Q value = 4.3e-14
Table S478. Gene #69: '16q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 16Q LOSS MUTATED | 75 | 259 | 224 |
| 16Q LOSS WILD-TYPE | 158 | 180 | 105 |
Figure S478. Get High-res Image Gene #69: '16q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 4.5e-13 (Fisher's exact test), Q value = 3.7e-10
Table S479. Gene #69: '16q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 16Q LOSS MUTATED | 245 | 190 | 110 |
| 16Q LOSS WILD-TYPE | 153 | 97 | 182 |
Figure S479. Get High-res Image Gene #69: '16q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 7.3e-18 (Fisher's exact test), Q value = 6.5e-15
Table S480. Gene #69: '16q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 16Q LOSS MUTATED | 95 | 148 | 302 |
| 16Q LOSS WILD-TYPE | 157 | 151 | 124 |
Figure S480. Get High-res Image Gene #69: '16q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 1.84e-08 (Fisher's exact test), Q value = 1.3e-05
Table S481. Gene #69: '16q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 16Q LOSS MUTATED | 144 | 148 | 77 |
| 16Q LOSS WILD-TYPE | 106 | 71 | 121 |
Figure S481. Get High-res Image Gene #69: '16q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 1.95e-07 (Fisher's exact test), Q value = 0.00012
Table S482. Gene #69: '16q loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 16Q LOSS MUTATED | 52 | 116 | 201 |
| 16Q LOSS WILD-TYPE | 93 | 61 | 144 |
Figure S482. Get High-res Image Gene #69: '16q loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 3.58e-09 (Chi-square test), Q value = 2.6e-06
Table S483. Gene #70: '17p loss' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 17P LOSS MUTATED | 13 | 23 | 68 | 61 | 30 | 56 | 11 | 21 |
| 17P LOSS WILD-TYPE | 8 | 13 | 51 | 35 | 79 | 16 | 9 | 19 |
Figure S483. Get High-res Image Gene #70: '17p loss' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 3.99e-22 (Chi-square test), Q value = 3.7e-19
Table S484. Gene #70: '17p loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 17P LOSS MUTATED | 129 | 168 | 47 | 174 | 22 |
| 17P LOSS WILD-TYPE | 242 | 90 | 50 | 62 | 23 |
Figure S484. Get High-res Image Gene #70: '17p loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 1.6e-06 (Chi-square test), Q value = 0.00095
Table S485. Gene #70: '17p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 17P LOSS MUTATED | 73 | 62 | 62 | 89 | 26 | 41 |
| 17P LOSS WILD-TYPE | 43 | 93 | 46 | 50 | 29 | 71 |
Figure S485. Get High-res Image Gene #70: '17p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 8.96e-07 (Fisher's exact test), Q value = 0.00054
Table S486. Gene #70: '17p loss' versus Molecular Subtype #5: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 147 | 133 | 117 |
| 17P LOSS MUTATED | 106 | 56 | 59 |
| 17P LOSS WILD-TYPE | 41 | 77 | 58 |
Figure S486. Get High-res Image Gene #70: '17p loss' versus Molecular Subtype #5: 'RPPA_CNMF'
P value = 6.78e-06 (Fisher's exact test), Q value = 0.0038
Table S487. Gene #70: '17p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 17P LOSS MUTATED | 179 | 83 | 275 |
| 17P LOSS WILD-TYPE | 94 | 103 | 267 |
Figure S487. Get High-res Image Gene #70: '17p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 0.000454 (Fisher's exact test), Q value = 0.19
Table S488. Gene #70: '17p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 17P LOSS MUTATED | 148 | 235 | 154 |
| 17P LOSS WILD-TYPE | 85 | 204 | 175 |
Figure S488. Get High-res Image Gene #70: '17p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 5.22e-08 (Fisher's exact test), Q value = 3.5e-05
Table S489. Gene #70: '17p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 17P LOSS MUTATED | 201 | 127 | 196 |
| 17P LOSS WILD-TYPE | 197 | 160 | 96 |
Figure S489. Get High-res Image Gene #70: '17p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 6.92e-05 (Fisher's exact test), Q value = 0.035
Table S490. Gene #70: '17p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 17P LOSS MUTATED | 163 | 159 | 202 |
| 17P LOSS WILD-TYPE | 89 | 140 | 224 |
Figure S490. Get High-res Image Gene #70: '17p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 1.09e-05 (Fisher's exact test), Q value = 0.0061
Table S491. Gene #70: '17p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 17P LOSS MUTATED | 129 | 93 | 130 |
| 17P LOSS WILD-TYPE | 121 | 126 | 68 |
Figure S491. Get High-res Image Gene #70: '17p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 2.24e-12 (Chi-square test), Q value = 1.8e-09
Table S492. Gene #71: '17q loss' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 17Q LOSS MUTATED | 4 | 4 | 22 | 51 | 13 | 34 | 4 | 12 |
| 17Q LOSS WILD-TYPE | 17 | 32 | 97 | 45 | 96 | 38 | 16 | 28 |
Figure S492. Get High-res Image Gene #71: '17q loss' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 3.34e-10 (Fisher's exact test), Q value = 2.5e-07
Table S493. Gene #71: '17q loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 17Q LOSS MUTATED | 24 | 65 | 55 |
| 17Q LOSS WILD-TYPE | 98 | 60 | 211 |
Figure S493. Get High-res Image Gene #71: '17q loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 5.74e-22 (Chi-square test), Q value = 5.3e-19
Table S494. Gene #71: '17q loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 17Q LOSS MUTATED | 50 | 57 | 25 | 117 | 6 |
| 17Q LOSS WILD-TYPE | 321 | 201 | 72 | 119 | 39 |
Figure S494. Get High-res Image Gene #71: '17q loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 2.51e-15 (Chi-square test), Q value = 2.2e-12
Table S495. Gene #71: '17q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 17Q LOSS MUTATED | 58 | 13 | 17 | 31 | 5 | 27 |
| 17Q LOSS WILD-TYPE | 58 | 142 | 91 | 108 | 50 | 85 |
Figure S495. Get High-res Image Gene #71: '17q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 7.36e-10 (Fisher's exact test), Q value = 5.4e-07
Table S496. Gene #71: '17q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 147 | 133 | 117 |
| 17Q LOSS MUTATED | 70 | 17 | 32 |
| 17Q LOSS WILD-TYPE | 77 | 116 | 85 |
Figure S496. Get High-res Image Gene #71: '17q loss' versus Molecular Subtype #5: 'RPPA_CNMF'
P value = 2.44e-10 (Fisher's exact test), Q value = 1.8e-07
Table S497. Gene #71: '17q loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 161 | 110 | 126 |
| 17Q LOSS MUTATED | 27 | 26 | 66 |
| 17Q LOSS WILD-TYPE | 134 | 84 | 60 |
Figure S497. Get High-res Image Gene #71: '17q loss' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'
P value = 6.55e-18 (Fisher's exact test), Q value = 5.8e-15
Table S498. Gene #71: '17q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 17Q LOSS MUTATED | 125 | 31 | 96 |
| 17Q LOSS WILD-TYPE | 148 | 155 | 446 |
Figure S498. Get High-res Image Gene #71: '17q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 5.78e-17 (Fisher's exact test), Q value = 5.1e-14
Table S499. Gene #71: '17q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 17Q LOSS MUTATED | 111 | 82 | 59 |
| 17Q LOSS WILD-TYPE | 122 | 357 | 270 |
Figure S499. Get High-res Image Gene #71: '17q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 5.94e-13 (Fisher's exact test), Q value = 4.8e-10
Table S500. Gene #71: '17q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 17Q LOSS MUTATED | 76 | 50 | 122 |
| 17Q LOSS WILD-TYPE | 322 | 237 | 170 |
Figure S500. Get High-res Image Gene #71: '17q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 8.54e-16 (Fisher's exact test), Q value = 7.4e-13
Table S501. Gene #71: '17q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 17Q LOSS MUTATED | 114 | 65 | 69 |
| 17Q LOSS WILD-TYPE | 138 | 234 | 357 |
Figure S501. Get High-res Image Gene #71: '17q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 6.07e-09 (Fisher's exact test), Q value = 4.3e-06
Table S502. Gene #71: '17q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 17Q LOSS MUTATED | 50 | 35 | 81 |
| 17Q LOSS WILD-TYPE | 200 | 184 | 117 |
Figure S502. Get High-res Image Gene #71: '17q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 2.74e-07 (Fisher's exact test), Q value = 0.00017
Table S503. Gene #71: '17q loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 17Q LOSS MUTATED | 61 | 28 | 77 |
| 17Q LOSS WILD-TYPE | 84 | 149 | 268 |
Figure S503. Get High-res Image Gene #71: '17q loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.000251 (Chi-square test), Q value = 0.11
Table S504. Gene #72: '18p loss' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 18P LOSS MUTATED | 6 | 11 | 36 | 27 | 19 | 38 | 9 | 13 |
| 18P LOSS WILD-TYPE | 15 | 25 | 83 | 69 | 90 | 34 | 11 | 27 |
Figure S504. Get High-res Image Gene #72: '18p loss' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 2.9e-13 (Chi-square test), Q value = 2.4e-10
Table S505. Gene #72: '18p loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 18P LOSS MUTATED | 58 | 105 | 41 | 88 | 10 |
| 18P LOSS WILD-TYPE | 313 | 153 | 56 | 148 | 35 |
Figure S505. Get High-res Image Gene #72: '18p loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 3.78e-07 (Chi-square test), Q value = 0.00023
Table S506. Gene #72: '18p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 18P LOSS MUTATED | 33 | 25 | 48 | 58 | 12 | 27 |
| 18P LOSS WILD-TYPE | 83 | 130 | 60 | 81 | 43 | 85 |
Figure S506. Get High-res Image Gene #72: '18p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 0.000199 (Chi-square test), Q value = 0.092
Table S507. Gene #73: '18q loss' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 18Q LOSS MUTATED | 5 | 11 | 34 | 27 | 19 | 38 | 7 | 9 |
| 18Q LOSS WILD-TYPE | 16 | 25 | 85 | 69 | 90 | 34 | 13 | 31 |
Figure S507. Get High-res Image Gene #73: '18q loss' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 1.05e-15 (Chi-square test), Q value = 9e-13
Table S508. Gene #73: '18q loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 18Q LOSS MUTATED | 54 | 105 | 42 | 93 | 9 |
| 18Q LOSS WILD-TYPE | 317 | 153 | 55 | 143 | 36 |
Figure S508. Get High-res Image Gene #73: '18q loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 1.48e-08 (Chi-square test), Q value = 1e-05
Table S509. Gene #73: '18q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 18Q LOSS MUTATED | 40 | 25 | 49 | 60 | 11 | 24 |
| 18Q LOSS WILD-TYPE | 76 | 130 | 59 | 79 | 44 | 88 |
Figure S509. Get High-res Image Gene #73: '18q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 0.000263 (Fisher's exact test), Q value = 0.12
Table S510. Gene #73: '18q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 18Q LOSS MUTATED | 98 | 35 | 167 |
| 18Q LOSS WILD-TYPE | 175 | 151 | 375 |
Figure S510. Get High-res Image Gene #73: '18q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 6.27e-06 (Fisher's exact test), Q value = 0.0036
Table S511. Gene #73: '18q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 18Q LOSS MUTATED | 78 | 42 | 81 |
| 18Q LOSS WILD-TYPE | 172 | 177 | 117 |
Figure S511. Get High-res Image Gene #73: '18q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 2.62e-05 (Chi-square test), Q value = 0.014
Table S512. Gene #74: '19p loss' versus Molecular Subtype #1: 'MRNA_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 | CLUS_7 | CLUS_8 |
|---|---|---|---|---|---|---|---|---|
| ALL | 21 | 36 | 119 | 96 | 109 | 72 | 20 | 40 |
| 19P LOSS MUTATED | 3 | 6 | 30 | 20 | 8 | 25 | 1 | 2 |
| 19P LOSS WILD-TYPE | 18 | 30 | 89 | 76 | 101 | 47 | 19 | 38 |
Figure S512. Get High-res Image Gene #74: '19p loss' versus Molecular Subtype #1: 'MRNA_CNMF'
P value = 2.68e-05 (Fisher's exact test), Q value = 0.014
Table S513. Gene #74: '19p loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 19P LOSS MUTATED | 7 | 25 | 63 |
| 19P LOSS WILD-TYPE | 115 | 100 | 203 |
Figure S513. Get High-res Image Gene #74: '19p loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 1.57e-20 (Chi-square test), Q value = 1.4e-17
Table S514. Gene #74: '19p loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 19P LOSS MUTATED | 17 | 85 | 9 | 60 | 8 |
| 19P LOSS WILD-TYPE | 354 | 173 | 88 | 176 | 37 |
Figure S514. Get High-res Image Gene #74: '19p loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 2.89e-12 (Chi-square test), Q value = 2.3e-09
Table S515. Gene #74: '19p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 19P LOSS MUTATED | 31 | 5 | 16 | 47 | 4 | 13 |
| 19P LOSS WILD-TYPE | 85 | 150 | 92 | 92 | 51 | 99 |
Figure S515. Get High-res Image Gene #74: '19p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 3.19e-08 (Fisher's exact test), Q value = 2.2e-05
Table S516. Gene #74: '19p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 19P LOSS MUTATED | 69 | 10 | 99 |
| 19P LOSS WILD-TYPE | 204 | 176 | 443 |
Figure S516. Get High-res Image Gene #74: '19p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 5.77e-11 (Fisher's exact test), Q value = 4.5e-08
Table S517. Gene #74: '19p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 19P LOSS MUTATED | 52 | 104 | 22 |
| 19P LOSS WILD-TYPE | 181 | 335 | 307 |
Figure S517. Get High-res Image Gene #74: '19p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 4.11e-11 (Fisher's exact test), Q value = 3.2e-08
Table S518. Gene #74: '19p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 19P LOSS MUTATED | 71 | 19 | 81 |
| 19P LOSS WILD-TYPE | 327 | 268 | 211 |
Figure S518. Get High-res Image Gene #74: '19p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 8.21e-12 (Fisher's exact test), Q value = 6.5e-09
Table S519. Gene #74: '19p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 19P LOSS MUTATED | 62 | 75 | 34 |
| 19P LOSS WILD-TYPE | 190 | 224 | 392 |
Figure S519. Get High-res Image Gene #74: '19p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 6.16e-09 (Fisher's exact test), Q value = 4.4e-06
Table S520. Gene #74: '19p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 19P LOSS MUTATED | 41 | 15 | 58 |
| 19P LOSS WILD-TYPE | 209 | 204 | 140 |
Figure S520. Get High-res Image Gene #74: '19p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 6.53e-05 (Fisher's exact test), Q value = 0.033
Table S521. Gene #74: '19p loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 19P LOSS MUTATED | 40 | 16 | 58 |
| 19P LOSS WILD-TYPE | 105 | 161 | 287 |
Figure S521. Get High-res Image Gene #74: '19p loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 0.000338 (Fisher's exact test), Q value = 0.15
Table S522. Gene #75: '19q loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 122 | 125 | 266 |
| 19Q LOSS MUTATED | 6 | 19 | 52 |
| 19Q LOSS WILD-TYPE | 116 | 106 | 214 |
Figure S522. Get High-res Image Gene #75: '19q loss' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'
P value = 2.51e-18 (Chi-square test), Q value = 2.2e-15
Table S523. Gene #75: '19q loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 19Q LOSS MUTATED | 16 | 77 | 5 | 45 | 9 |
| 19Q LOSS WILD-TYPE | 355 | 181 | 92 | 191 | 36 |
Figure S523. Get High-res Image Gene #75: '19q loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 3.8e-08 (Chi-square test), Q value = 2.6e-05
Table S524. Gene #75: '19q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 19Q LOSS MUTATED | 24 | 4 | 17 | 37 | 2 | 16 |
| 19Q LOSS WILD-TYPE | 92 | 151 | 91 | 102 | 53 | 96 |
Figure S524. Get High-res Image Gene #75: '19q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 1.02e-07 (Fisher's exact test), Q value = 6.6e-05
Table S525. Gene #75: '19q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 19Q LOSS MUTATED | 58 | 7 | 87 |
| 19Q LOSS WILD-TYPE | 215 | 179 | 455 |
Figure S525. Get High-res Image Gene #75: '19q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 1.8e-12 (Fisher's exact test), Q value = 1.4e-09
Table S526. Gene #75: '19q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 19Q LOSS MUTATED | 46 | 92 | 14 |
| 19Q LOSS WILD-TYPE | 187 | 347 | 315 |
Figure S526. Get High-res Image Gene #75: '19q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 1e-08 (Fisher's exact test), Q value = 7e-06
Table S527. Gene #75: '19q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 19Q LOSS MUTATED | 62 | 17 | 68 |
| 19Q LOSS WILD-TYPE | 336 | 270 | 224 |
Figure S527. Get High-res Image Gene #75: '19q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 3.52e-09 (Fisher's exact test), Q value = 2.5e-06
Table S528. Gene #75: '19q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 19Q LOSS MUTATED | 49 | 67 | 31 |
| 19Q LOSS WILD-TYPE | 203 | 232 | 395 |
Figure S528. Get High-res Image Gene #75: '19q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 9.8e-07 (Fisher's exact test), Q value = 0.00059
Table S529. Gene #75: '19q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 19Q LOSS MUTATED | 36 | 13 | 47 |
| 19Q LOSS WILD-TYPE | 214 | 206 | 151 |
Figure S529. Get High-res Image Gene #75: '19q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 1.09e-10 (Chi-square test), Q value = 8.4e-08
Table S530. Gene #76: '20p loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 20P LOSS MUTATED | 9 | 26 | 5 | 45 | 3 |
| 20P LOSS WILD-TYPE | 362 | 232 | 92 | 191 | 42 |
Figure S530. Get High-res Image Gene #76: '20p loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 9.22e-12 (Chi-square test), Q value = 7.3e-09
Table S531. Gene #76: '20p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 20P LOSS MUTATED | 32 | 5 | 9 | 11 | 3 | 3 |
| 20P LOSS WILD-TYPE | 84 | 150 | 99 | 128 | 52 | 109 |
Figure S531. Get High-res Image Gene #76: '20p loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 4.88e-11 (Fisher's exact test), Q value = 3.8e-08
Table S532. Gene #76: '20p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 20P LOSS MUTATED | 51 | 3 | 34 |
| 20P LOSS WILD-TYPE | 222 | 183 | 508 |
Figure S532. Get High-res Image Gene #76: '20p loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 4.75e-11 (Fisher's exact test), Q value = 3.7e-08
Table S533. Gene #76: '20p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 20P LOSS MUTATED | 45 | 35 | 8 |
| 20P LOSS WILD-TYPE | 188 | 404 | 321 |
Figure S533. Get High-res Image Gene #76: '20p loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 2.89e-10 (Fisher's exact test), Q value = 2.2e-07
Table S534. Gene #76: '20p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 20P LOSS MUTATED | 20 | 10 | 52 |
| 20P LOSS WILD-TYPE | 378 | 277 | 240 |
Figure S534. Get High-res Image Gene #76: '20p loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 6.47e-10 (Fisher's exact test), Q value = 4.8e-07
Table S535. Gene #76: '20p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 20P LOSS MUTATED | 43 | 27 | 12 |
| 20P LOSS WILD-TYPE | 209 | 272 | 414 |
Figure S535. Get High-res Image Gene #76: '20p loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 3.23e-08 (Fisher's exact test), Q value = 2.2e-05
Table S536. Gene #76: '20p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 20P LOSS MUTATED | 10 | 9 | 37 |
| 20P LOSS WILD-TYPE | 240 | 210 | 161 |
Figure S536. Get High-res Image Gene #76: '20p loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 8.91e-09 (Fisher's exact test), Q value = 6.2e-06
Table S537. Gene #76: '20p loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 20P LOSS MUTATED | 32 | 8 | 16 |
| 20P LOSS WILD-TYPE | 113 | 169 | 329 |
Figure S537. Get High-res Image Gene #76: '20p loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1.03e-07 (Chi-square test), Q value = 6.7e-05
Table S538. Gene #77: '20q loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 20Q LOSS MUTATED | 4 | 12 | 4 | 29 | 2 |
| 20Q LOSS WILD-TYPE | 367 | 246 | 93 | 207 | 43 |
Figure S538. Get High-res Image Gene #77: '20q loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 2.92e-10 (Chi-square test), Q value = 2.2e-07
Table S539. Gene #77: '20q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 20Q LOSS MUTATED | 22 | 3 | 2 | 5 | 1 | 3 |
| 20Q LOSS WILD-TYPE | 94 | 152 | 106 | 134 | 54 | 109 |
Figure S539. Get High-res Image Gene #77: '20q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 5.07e-08 (Fisher's exact test), Q value = 3.4e-05
Table S540. Gene #77: '20q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 20Q LOSS MUTATED | 33 | 3 | 15 |
| 20Q LOSS WILD-TYPE | 240 | 183 | 527 |
Figure S540. Get High-res Image Gene #77: '20q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 1.23e-08 (Fisher's exact test), Q value = 8.5e-06
Table S541. Gene #77: '20q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| 20Q LOSS MUTATED | 31 | 14 | 6 |
| 20Q LOSS WILD-TYPE | 202 | 425 | 323 |
Figure S541. Get High-res Image Gene #77: '20q loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 4.39e-07 (Fisher's exact test), Q value = 0.00027
Table S542. Gene #77: '20q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| 20Q LOSS MUTATED | 8 | 8 | 32 |
| 20Q LOSS WILD-TYPE | 390 | 279 | 260 |
Figure S542. Get High-res Image Gene #77: '20q loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 4.88e-08 (Fisher's exact test), Q value = 3.3e-05
Table S543. Gene #77: '20q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| 20Q LOSS MUTATED | 31 | 7 | 10 |
| 20Q LOSS WILD-TYPE | 221 | 292 | 416 |
Figure S543. Get High-res Image Gene #77: '20q loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
P value = 8.61e-08 (Fisher's exact test), Q value = 5.6e-05
Table S544. Gene #77: '20q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 250 | 219 | 198 |
| 20Q LOSS MUTATED | 2 | 7 | 25 |
| 20Q LOSS WILD-TYPE | 248 | 212 | 173 |
Figure S544. Get High-res Image Gene #77: '20q loss' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'
P value = 7.15e-09 (Fisher's exact test), Q value = 5e-06
Table S545. Gene #77: '20q loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 145 | 177 | 345 |
| 20Q LOSS MUTATED | 23 | 6 | 5 |
| 20Q LOSS WILD-TYPE | 122 | 171 | 340 |
Figure S545. Get High-res Image Gene #77: '20q loss' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'
P value = 1.38e-12 (Chi-square test), Q value = 1.1e-09
Table S546. Gene #78: '21q loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 21Q LOSS MUTATED | 19 | 71 | 18 | 48 | 10 |
| 21Q LOSS WILD-TYPE | 352 | 187 | 79 | 188 | 35 |
Figure S546. Get High-res Image Gene #78: '21q loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 3.17e-11 (Chi-square test), Q value = 2.5e-08
Table S547. Gene #79: '22q loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| 22Q LOSS MUTATED | 121 | 141 | 66 | 102 | 24 |
| 22Q LOSS WILD-TYPE | 250 | 117 | 31 | 134 | 21 |
Figure S547. Get High-res Image Gene #79: '22q loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 1.29e-05 (Chi-square test), Q value = 0.0071
Table S548. Gene #79: '22q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| 22Q LOSS MUTATED | 51 | 60 | 52 | 87 | 17 | 38 |
| 22Q LOSS WILD-TYPE | 65 | 95 | 56 | 52 | 38 | 74 |
Figure S548. Get High-res Image Gene #79: '22q loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 3.65e-05 (Fisher's exact test), Q value = 0.019
Table S549. Gene #79: '22q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| 22Q LOSS MUTATED | 97 | 76 | 279 |
| 22Q LOSS WILD-TYPE | 176 | 110 | 263 |
Figure S549. Get High-res Image Gene #79: '22q loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 4.8e-11 (Chi-square test), Q value = 3.7e-08
Table S550. Gene #80: 'xq loss' versus Molecular Subtype #3: 'CN_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 |
|---|---|---|---|---|---|
| ALL | 371 | 258 | 97 | 236 | 45 |
| XQ LOSS MUTATED | 24 | 62 | 14 | 62 | 6 |
| XQ LOSS WILD-TYPE | 347 | 196 | 83 | 174 | 39 |
Figure S550. Get High-res Image Gene #80: 'xq loss' versus Molecular Subtype #3: 'CN_CNMF'
P value = 2.47e-05 (Chi-square test), Q value = 0.013
Table S551. Gene #80: 'xq loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 | CLUS_4 | CLUS_5 | CLUS_6 |
|---|---|---|---|---|---|---|
| ALL | 116 | 155 | 108 | 139 | 55 | 112 |
| XQ LOSS MUTATED | 26 | 15 | 24 | 34 | 6 | 6 |
| XQ LOSS WILD-TYPE | 90 | 140 | 84 | 105 | 49 | 106 |
Figure S551. Get High-res Image Gene #80: 'xq loss' versus Molecular Subtype #4: 'METHLYATION_CNMF'
P value = 0.000245 (Fisher's exact test), Q value = 0.11
Table S552. Gene #80: 'xq loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 273 | 186 | 542 |
| XQ LOSS MUTATED | 56 | 14 | 98 |
| XQ LOSS WILD-TYPE | 217 | 172 | 444 |
Figure S552. Get High-res Image Gene #80: 'xq loss' versus Molecular Subtype #7: 'MRNASEQ_CNMF'
P value = 3.47e-05 (Fisher's exact test), Q value = 0.018
Table S553. Gene #80: 'xq loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 233 | 439 | 329 |
| XQ LOSS MUTATED | 47 | 90 | 31 |
| XQ LOSS WILD-TYPE | 186 | 349 | 298 |
Figure S553. Get High-res Image Gene #80: 'xq loss' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'
P value = 2.47e-05 (Fisher's exact test), Q value = 0.013
Table S554. Gene #80: 'xq loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 398 | 287 | 292 |
| XQ LOSS MUTATED | 77 | 25 | 62 |
| XQ LOSS WILD-TYPE | 321 | 262 | 230 |
Figure S554. Get High-res Image Gene #80: 'xq loss' versus Molecular Subtype #9: 'MIRSEQ_CNMF'
P value = 0.000113 (Fisher's exact test), Q value = 0.055
Table S555. Gene #80: 'xq loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
| nPatients | CLUS_1 | CLUS_2 | CLUS_3 |
|---|---|---|---|
| ALL | 252 | 299 | 426 |
| XQ LOSS MUTATED | 45 | 70 | 49 |
| XQ LOSS WILD-TYPE | 207 | 229 | 377 |
Figure S555. Get High-res Image Gene #80: 'xq loss' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'
-
Copy number data file = transformed.cor.cli.txt
-
Molecular subtypes file = BRCA-TP.transferedmergedcluster.txt
-
Number of patients = 1007
-
Number of significantly arm-level cnvs = 80
-
Number of molecular subtypes = 12
-
Exclude genes that fewer than K tumors have mutations, K = 3
For multi-class clinical features (nominal or ordinal), Chi-square tests (Greenwood and Nikulin 1996) were used to estimate the P values using the 'chisq.test' function in R
For binary or multi-class clinical features (nominal or ordinal), two-tailed Fisher's exact tests (Fisher 1922) were used to estimate the P values using the 'fisher.test' function in R
For multiple hypothesis correction, Q value is the False Discovery Rate (FDR) analogue of the P value (Benjamini and Hochberg 1995), defined as the minimum FDR at which the test may be called significant. We used the 'Benjamini and Hochberg' method of 'p.adjust' function in R to convert P values into Q values.