Broad GDAC Analyses Status
integration Run for Tumor Type: BLCA
Cohort
BCR
Clinical
CN
LowP
Methylation
mRNA
mRNASeq
miR
miRSeq
RPPA
MAF
rawMAF
BLCA
412
412
410
112
412
0
408
0
409
344
130
395
Note that the links below require Broad internal Firehose login credentials.
Pipeline
NotRunnable
Runnable
InProcess
Successful
Unsuccessful
1
Clinical_Pick_Tier1
0
0
0
1
0
2
CreateLoadfile_exon__huex_1_0_st_v2__lbl_gov__Level_3__quantile_normalization_gene__data_NB
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CreateLoadfile_paradigm_mRNAseq_exp_RPKM_log2_NB
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CreateLoadfile_paradigm_mRNAseq_exp_RSEM_log2_NB
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Methylation_Preprocess
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miRseq_Mature_Preprocess
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Mutation_Oncotator_Calls
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Mutation_Packager_Oncotated_Calls
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Mutation_Packager_Oncotated_Raw_Calls
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Mutation_Packager_Raw_Calls
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Mutation_Packager_Raw_Coverage
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RPPA_AnnotateWithGene
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TP-Clinical_Pick_Tier1
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TP-CreateLoadfile_paradigm_mRNAseq_exp_RPKM_log2_NB
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TP-CreateLoadfile_paradigm_mRNAseq_exp_RPKM_log2_NT
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TP-CreateLoadfile_paradigm_mRNAseq_exp_RSEM_log2_NB
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TP-CreateLoadfile_paradigm_mRNAseq_exp_RSEM_log2_NT
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0
484
FFPE-Merge_snp__genome_wide_snp_6__broad_mit_edu__Level_2__birdseed_genotype__birdseed
0
0
0
1
0
485
FFPE-Merge_snp__genome_wide_snp_6__broad_mit_edu__Level_3__segmented_scna_hg18__seg
0
0
0
1
0
486
FFPE-Merge_snp__genome_wide_snp_6__broad_mit_edu__Level_3__segmented_scna_hg19__seg
0
0
0
1
0
487
FFPE-Merge_snp__genome_wide_snp_6__broad_mit_edu__Level_3__segmented_scna_minus_germline_cnv_hg18__seg
0
0
0
1
0
488
FFPE-Merge_snp__genome_wide_snp_6__broad_mit_edu__Level_3__segmented_scna_minus_germline_cnv_hg19__seg
0
0
0
1
0
489
FFPE-Merge_snp__human1mduo__hudsonalpha_org__Level_3__segmented_cna__seg
1
0
0
0
0
490
FFPE-Merge_snp__human1mduo__hudsonalpha_org__Level_3__segmented_cnv__seg
1
0
0
0
0
491
FFPE-Merge_snp__human1mduo__hudsonalpha_org__Level_3__segmented_loh__seg
1
0
0
0
0
492
FFPE-Merge_snp__humanhap550__hudsonalpha_org__Level_3__segmented_cna__seg
1
0
0
0
0
493
FFPE-Merge_snp__humanhap550__hudsonalpha_org__Level_3__segmented_cnv__seg
1
0
0
0
0
494
FFPE-Merge_snp__humanhap550__hudsonalpha_org__Level_3__segmented_loh__seg
1
0
0
0
0
495
FFPE-Merge_transcriptome__agilentg4502a_07_1__unc_edu__Level_2__unc_lowess_normalization_probe_level__data
1
0
0
0
0
496
FFPE-Merge_transcriptome__agilentg4502a_07_1__unc_edu__Level_3__unc_lowess_normalization_gene_level__data
1
0
0
0
0
497
FFPE-Merge_transcriptome__agilentg4502a_07_2__unc_edu__Level_2__unc_lowess_normalization_probe_level__data
1
0
0
0
0
498
FFPE-Merge_transcriptome__agilentg4502a_07_2__unc_edu__Level_3__unc_lowess_normalization_gene_level__data
1
0
0
0
0
499
FFPE-Merge_transcriptome__agilentg4502a_07_3__unc_edu__Level_2__unc_lowess_normalization_probe_level__data
1
0
0
0
0
500
FFPE-Merge_transcriptome__agilentg4502a_07_3__unc_edu__Level_3__unc_lowess_normalization_gene_level__data
1
0
0
0
0
501
FFPE-Merge_transcriptome__ht_hg_u133a__broad_mit_edu__Level_2__probeset_rma__data
1
0
0
0
0
502
FFPE-Merge_transcriptome__ht_hg_u133a__broad_mit_edu__Level_3__gene_rma__data
1
0
0
0
0
503
FFPE-Methylation_Preprocess
0
0
0
1
0
504
FFPE-miRseq_Mature_Preprocess
0
1
0
0
0
505
FFPE-miRseq_Preprocess
0
1
0
0
0
506
FFPE-mRNA_Preprocess_Median
1
0
0
0
0
507
FFPE-mRNAseq_Preprocess
1
0
0
0
0
508
FFPE-Mutation_Oncotator_Calls
3
0
0
0
0
509
FFPE-Mutation_Oncotator_Raw_Calls
3
0
0
0
0
510
FFPE-Mutation_Packager_Calls
1
0
0
0
0
511
FFPE-Mutation_Packager_Coverage
1
0
0
0
0
512
FFPE-Mutation_Packager_Oncotated_Calls
1
0
0
0
0
513
FFPE-Mutation_Packager_Oncotated_Raw_Calls
1
0
0
0
0
514
FFPE-Mutation_Packager_Raw_Calls
1
0
0
0
0
515
FFPE-Mutation_Packager_Raw_Coverage
1
0
0
0
0
516
FFPE-RPPA_AnnotateWithGene
1
0
0
0
0
Total
2685
23
0
1158
0
This table generated on Thu Nov 3 10:13:59 2016