Broad GDAC Standard Data Status
stddata__2013_10_10 Run for Tumor Type: COAD

TumorBCRClinicalCNLowPMethylationmRNAmRNAseqmiRmiRseqRPPAMAF
COAD437431428694351534030407331154

Note that the links below require Broad internal Firehose login credentials.

Pipeline DatasetNot AvailableAvailableInProcessSuccessfulUnsuccessful
1Clinical_Pick_Tier100010
2CreateLoadfile_exon__huex_1_0_st_v2__lbl_gov__Level_3__quantile_normalization_gene__data_NB10000
3CreateLoadfile_exon__huex_1_0_st_v2__lbl_gov__Level_3__quantile_normalization_gene__data_NT10000
4CreateLoadfile_paradigm_mRNAseq_exp_RPKM_log2_NB10000
5CreateLoadfile_paradigm_mRNAseq_exp_RPKM_log2_NT10000
6CreateLoadfile_paradigm_mRNAseq_exp_RSEM_log2_NB10000
7CreateLoadfile_paradigm_mRNAseq_exp_RSEM_log2_NT10000
8CreateLoadfile_transcriptome__agilentg4502a_07_3__unc_edu__Level_3__unc_lowess_normalization_gene_level__data_NB10000
9CreateLoadfile_transcriptome__agilentg4502a_07_3__unc_edu__Level_3__unc_lowess_normalization_gene_level__data_NT10000
10CreateLoadfile_transcriptome__ht_hg_u133a__broad_mit_edu__Level_3__gene_rma__data_NB10000
11CreateLoadfile_transcriptome__ht_hg_u133a__broad_mit_edu__Level_3__gene_rma__data_NT10000
12Merge_Clinical00010
13Merge_cna__cgh_1x1m_g4447a__mskcc_org__Level_2__bioassay_data_transformation__data10000
14Merge_cna__cgh_1x1m_g4447a__mskcc_org__Level_3__segmentation_data_computation__seg10000
15Merge_cna__hg_cgh_244a__hms_harvard_edu__Level_2__lowess_global_normalization__data10000
16Merge_cna__hg_cgh_244a__hms_harvard_edu__Level_3__segmentation__seg10000
17Merge_cna__hg_cgh_244a__mskcc_org__Level_2__bioassay_data_transformation__data10000
18Merge_cna__hg_cgh_244a__mskcc_org__Level_3__segmentation_data_computation__seg10000
19Merge_cna__hg_cgh_415k_g4124a__hms_harvard_edu__Level_2__lowess_global_normalization__data10000
20Merge_cna__hg_cgh_415k_g4124a__hms_harvard_edu__Level_3__segmentation__seg10000
21Merge_cna__illuminahiseq_dnaseqc__hms_harvard_edu__Level_3__segmentation__seg00010
22Merge_exon__huex_1_0_st_v2__lbl_gov__Level_2__quantile_normalization_exon__data10000
23Merge_exon__huex_1_0_st_v2__lbl_gov__Level_3__quantile_normalization_gene__data10000
24Merge_exon__huex_1_0_st_v2__lbl_gov__Level_3__segmented_as_firma__data10000
25Merge_methylation__humanmethylation27__jhu_usc_edu__Level_2__within_bioassay_data_set_function__data10000
26Merge_methylation__humanmethylation27__jhu_usc_edu__Level_3__within_bioassay_data_set_function__data00010
27Merge_methylation__humanmethylation450__jhu_usc_edu__Level_3__within_bioassay_data_set_function__data00010
28Merge_methylation__illuminadnamethylation_oma003_cpi__jhu_usc_edu__Level_2__within_bioassay_data_set_function__data10000
29Merge_mirna__h_mirna_8x15k__unc_edu__Level_2__unc_quantile_normalization__data10000
30Merge_mirna__h_mirna_8x15k__unc_edu__Level_3__unc_DWD_Batch_adjusted__data10000
31Merge_mirna__h_mirna_8x15kv2__unc_edu__Level_2__unc_quantile_normalization__data10000
32Merge_mirna__h_mirna_8x15kv2__unc_edu__Level_3__unc_DWD_Batch_adjusted__data10000
33Merge_mirnaseq__illuminaga_mirnaseq__bcgsc_ca__Level_3__miR_gene_expression__data00010
34Merge_mirnaseq__illuminaga_mirnaseq__bcgsc_ca__Level_3__miR_isoform_expression__data00010
35Merge_mirnaseq__illuminahiseq_mirnaseq__bcgsc_ca__Level_3__miR_gene_expression__data00010
36Merge_mirnaseq__illuminahiseq_mirnaseq__bcgsc_ca__Level_3__miR_isoform_expression__data00010
37Merge_protein_exp__mda_rppa_core__mdanderson_org__Level_3__protein_normalization__data00010
38Merge_rnaseq__illuminaga_rnaseq__bcgsc_ca__Level_3__exon_expression__data10000
39Merge_rnaseq__illuminaga_rnaseq__bcgsc_ca__Level_3__gene_expression__data10000
40Merge_rnaseq__illuminaga_rnaseq__bcgsc_ca__Level_3__splice_junction_expression__data10000
41Merge_rnaseq__illuminaga_rnaseq__unc_edu__Level_3__exon_expression__data00010
42Merge_rnaseq__illuminaga_rnaseq__unc_edu__Level_3__gene_expression__data00010
43Merge_rnaseq__illuminaga_rnaseq__unc_edu__Level_3__splice_junction_expression__data00010
44Merge_rnaseq__illuminahiseq_rnaseq__bcgsc_ca__Level_3__exon_expression__data10000
45Merge_rnaseq__illuminahiseq_rnaseq__bcgsc_ca__Level_3__gene_expression__data10000
46Merge_rnaseq__illuminahiseq_rnaseq__bcgsc_ca__Level_3__splice_junction_expression__data10000
47Merge_rnaseq__illuminahiseq_rnaseq__unc_edu__Level_3__exon_expression__data10000
48Merge_rnaseq__illuminahiseq_rnaseq__unc_edu__Level_3__gene_expression__data10000
49Merge_rnaseq__illuminahiseq_rnaseq__unc_edu__Level_3__splice_junction_expression__data10000
50Merge_rnaseqv2__illuminaga_rnaseqv2__unc_edu__Level_3__exon_quantification__data00010
51Merge_rnaseqv2__illuminaga_rnaseqv2__unc_edu__Level_3__junction_quantification__data00010
52Merge_rnaseqv2__illuminaga_rnaseqv2__unc_edu__Level_3__RSEM_genes__data00010
53Merge_rnaseqv2__illuminaga_rnaseqv2__unc_edu__Level_3__RSEM_genes_normalized__data00010
54Merge_rnaseqv2__illuminaga_rnaseqv2__unc_edu__Level_3__RSEM_isoforms_normalized__data00010
55Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__exon_quantification__data00010
56Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__junction_quantification__data00010
57Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes__data00010
58Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes_normalized__data00010
59Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_isoforms_normalized__data00010
60Merge_snp__genome_wide_snp_6__broad_mit_edu__Level_2__after_5NN_copy_number__data10000
61Merge_snp__genome_wide_snp_6__broad_mit_edu__Level_2__birdseed_genotype__birdseed00010
62Merge_snp__genome_wide_snp_6__broad_mit_edu__Level_2__copynumber_byallele__data10000
63Merge_snp__genome_wide_snp_6__broad_mit_edu__Level_2__copy_number__data10000
64Merge_snp__genome_wide_snp_6__broad_mit_edu__Level_2__invariantset_medianpolish__data10000
65Merge_snp__genome_wide_snp_6__broad_mit_edu__Level_2__no_outlier_copy_number__data10000
66Merge_snp__genome_wide_snp_6__broad_mit_edu__Level_3__segmented_scna_hg18__seg00010
67Merge_snp__genome_wide_snp_6__broad_mit_edu__Level_3__segmented_scna_hg19__seg00010
68Merge_snp__genome_wide_snp_6__broad_mit_edu__Level_3__segmented_scna_minus_germline_cnv_hg18__seg00010
69Merge_snp__genome_wide_snp_6__broad_mit_edu__Level_3__segmented_scna_minus_germline_cnv_hg19__seg00010
70Merge_snp__human1mduo__hudsonalpha_org__Level_1__XandYintensity__data10000
71Merge_snp__human1mduo__hudsonalpha_org__Level_2__B_allele_freq__data10000
72Merge_snp__human1mduo__hudsonalpha_org__Level_2__Delta_B_allele_freq__data10000
73Merge_snp__human1mduo__hudsonalpha_org__Level_2__genotyping__data10000
74Merge_snp__human1mduo__hudsonalpha_org__Level_2__Normal_LogR__data10000
75Merge_snp__human1mduo__hudsonalpha_org__Level_2__Paired_LogR__data10000
76Merge_snp__human1mduo__hudsonalpha_org__Level_2__Unpaired_LogR__data10000
77Merge_snp__human1mduo__hudsonalpha_org__Level_3__segmented_cna__seg10000
78Merge_snp__human1mduo__hudsonalpha_org__Level_3__segmented_cnv__seg10000
79Merge_snp__human1mduo__hudsonalpha_org__Level_3__segmented_loh__seg10000
80Merge_snp__humanhap550__hudsonalpha_org__Level_1__XandYintensity__data10000
81Merge_snp__humanhap550__hudsonalpha_org__Level_2__B_allele_freq__data10000
82Merge_snp__humanhap550__hudsonalpha_org__Level_2__Delta_B_allele_freq__data10000
83Merge_snp__humanhap550__hudsonalpha_org__Level_2__genotyping__data10000
84Merge_snp__humanhap550__hudsonalpha_org__Level_2__Normal_LogR__data10000
85Merge_snp__humanhap550__hudsonalpha_org__Level_2__Paired_LogR__data10000
86Merge_snp__humanhap550__hudsonalpha_org__Level_2__Unpaired_LogR__data10000
87Merge_snp__humanhap550__hudsonalpha_org__Level_3__segmented_cna__seg10000
88Merge_snp__humanhap550__hudsonalpha_org__Level_3__segmented_cnv__seg10000
89Merge_snp__humanhap550__hudsonalpha_org__Level_3__segmented_loh__seg10000
90Merge_transcriptome__agilentg4502a_07_1__unc_edu__Level_2__unc_lowess_normalization_probe_level__data10000
91Merge_transcriptome__agilentg4502a_07_1__unc_edu__Level_3__unc_lowess_normalization_gene_level__data10000
92Merge_transcriptome__agilentg4502a_07_2__unc_edu__Level_2__unc_lowess_normalization_probe_level__data10000
93Merge_transcriptome__agilentg4502a_07_2__unc_edu__Level_3__unc_lowess_normalization_gene_level__data10000
94Merge_transcriptome__agilentg4502a_07_3__unc_edu__Level_2__unc_lowess_normalization_probe_level__data00010
95Merge_transcriptome__agilentg4502a_07_3__unc_edu__Level_3__unc_lowess_normalization_gene_level__data00010
96Merge_transcriptome__ht_hg_u133a__broad_mit_edu__Level_2__probeset_rma__data10000
97Merge_transcriptome__ht_hg_u133a__broad_mit_edu__Level_3__gene_rma__data10000
98mRNAseq_Preprocess00010
99Mutation_Packager_Calls00010
100Mutation_Packager_Coverage00010
101RPPA_AnnotateWithGene00010
Total6700340

This table generated on Fri Oct 25 16:24:34 2013