Broad GDAC Standard Data Status
stddata__2016_01_28 Run for Tumor Type: UCS

CohortBCRClinicalCNLowPMethylationmRNAmRNASeqmiRmiRSeqRPPAMAFrawMAF
UCS57575605705705648570

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_3__segmentation_data_computation__seg10000
14Merge_cna__hg_cgh_244a__hms_harvard_edu__Level_3__segmentation__seg10000
15Merge_cna__hg_cgh_244a__mskcc_org__Level_3__segmentation_data_computation__seg10000
16Merge_cna__hg_cgh_415k_g4124a__hms_harvard_edu__Level_3__segmentation__seg10000
17Merge_cna__illuminahiseq_dnaseqc__hms_harvard_edu__Level_3__segmentation__seg10000
18Merge_exon__huex_1_0_st_v2__lbl_gov__Level_2__quantile_normalization_exon__data10000
19Merge_exon__huex_1_0_st_v2__lbl_gov__Level_3__quantile_normalization_gene__data10000
20Merge_exon__huex_1_0_st_v2__lbl_gov__Level_3__segmented_as_firma__data10000
21Merge_methylation__humanmethylation27__jhu_usc_edu__Level_3__within_bioassay_data_set_function__data10000
22Merge_methylation__humanmethylation450__jhu_usc_edu__Level_3__within_bioassay_data_set_function__data00010
23Merge_mirna__h_mirna_8x15k__unc_edu__Level_3__unc_DWD_Batch_adjusted__data10000
24Merge_mirna__h_mirna_8x15kv2__unc_edu__Level_3__unc_DWD_Batch_adjusted__data10000
25Merge_mirnaseq__illuminaga_mirnaseq__bcgsc_ca__Level_3__miR_gene_expression__data10000
26Merge_mirnaseq__illuminaga_mirnaseq__bcgsc_ca__Level_3__miR_isoform_expression__data10000
27Merge_mirnaseq__illuminahiseq_mirnaseq__bcgsc_ca__Level_3__miR_gene_expression__data00010
28Merge_mirnaseq__illuminahiseq_mirnaseq__bcgsc_ca__Level_3__miR_isoform_expression__data00010
29Merge_protein_exp__mda_rppa_core__mdanderson_org__Level_3__protein_normalization__data00010
30Merge_rnaseq__illuminaga_rnaseq__bcgsc_ca__Level_3__exon_expression__data10000
31Merge_rnaseq__illuminaga_rnaseq__bcgsc_ca__Level_3__gene_expression__data10000
32Merge_rnaseq__illuminaga_rnaseq__bcgsc_ca__Level_3__splice_junction_expression__data10000
33Merge_rnaseq__illuminaga_rnaseq__unc_edu__Level_3__exon_expression__data10000
34Merge_rnaseq__illuminaga_rnaseq__unc_edu__Level_3__gene_expression__data10000
35Merge_rnaseq__illuminaga_rnaseq__unc_edu__Level_3__splice_junction_expression__data10000
36Merge_rnaseq__illuminahiseq_rnaseq__bcgsc_ca__Level_3__exon_expression__data10000
37Merge_rnaseq__illuminahiseq_rnaseq__bcgsc_ca__Level_3__gene_expression__data10000
38Merge_rnaseq__illuminahiseq_rnaseq__bcgsc_ca__Level_3__splice_junction_expression__data10000
39Merge_rnaseq__illuminahiseq_rnaseq__unc_edu__Level_3__exon_expression__data10000
40Merge_rnaseq__illuminahiseq_rnaseq__unc_edu__Level_3__gene_expression__data10000
41Merge_rnaseq__illuminahiseq_rnaseq__unc_edu__Level_3__splice_junction_expression__data10000
42Merge_rnaseqv2__illuminaga_rnaseqv2__unc_edu__Level_3__exon_quantification__data10000
43Merge_rnaseqv2__illuminaga_rnaseqv2__unc_edu__Level_3__junction_quantification__data10000
44Merge_rnaseqv2__illuminaga_rnaseqv2__unc_edu__Level_3__RSEM_genes__data10000
45Merge_rnaseqv2__illuminaga_rnaseqv2__unc_edu__Level_3__RSEM_genes_normalized__data10000
46Merge_rnaseqv2__illuminaga_rnaseqv2__unc_edu__Level_3__RSEM_isoforms__data10000
47Merge_rnaseqv2__illuminaga_rnaseqv2__unc_edu__Level_3__RSEM_isoforms_normalized__data10000
48Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__exon_quantification__data00010
49Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__junction_quantification__data00010
50Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes__data00010
51Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes_normalized__data00010
52Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_isoforms__data00010
53Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_isoforms_normalized__data00010
54Merge_snp__genome_wide_snp_6__broad_mit_edu__Level_2__birdseed_genotype__birdseed00010
55Merge_snp__genome_wide_snp_6__broad_mit_edu__Level_3__segmented_scna_hg18__seg00010
56Merge_snp__genome_wide_snp_6__broad_mit_edu__Level_3__segmented_scna_hg19__seg00010
57Merge_snp__genome_wide_snp_6__broad_mit_edu__Level_3__segmented_scna_minus_germline_cnv_hg18__seg00010
58Merge_snp__genome_wide_snp_6__broad_mit_edu__Level_3__segmented_scna_minus_germline_cnv_hg19__seg00010
59Merge_snp__human1mduo__hudsonalpha_org__Level_3__segmented_cna__seg10000
60Merge_snp__human1mduo__hudsonalpha_org__Level_3__segmented_cnv__seg10000
61Merge_snp__human1mduo__hudsonalpha_org__Level_3__segmented_loh__seg10000
62Merge_snp__humanhap550__hudsonalpha_org__Level_3__segmented_cna__seg10000
63Merge_snp__humanhap550__hudsonalpha_org__Level_3__segmented_cnv__seg10000
64Merge_snp__humanhap550__hudsonalpha_org__Level_3__segmented_loh__seg10000
65Merge_transcriptome__agilentg4502a_07_1__unc_edu__Level_2__unc_lowess_normalization_probe_level__data10000
66Merge_transcriptome__agilentg4502a_07_1__unc_edu__Level_3__unc_lowess_normalization_gene_level__data10000
67Merge_transcriptome__agilentg4502a_07_2__unc_edu__Level_2__unc_lowess_normalization_probe_level__data10000
68Merge_transcriptome__agilentg4502a_07_2__unc_edu__Level_3__unc_lowess_normalization_gene_level__data10000
69Merge_transcriptome__agilentg4502a_07_3__unc_edu__Level_2__unc_lowess_normalization_probe_level__data10000
70Merge_transcriptome__agilentg4502a_07_3__unc_edu__Level_3__unc_lowess_normalization_gene_level__data10000
71Merge_transcriptome__ht_hg_u133a__broad_mit_edu__Level_2__probeset_rma__data10000
72Merge_transcriptome__ht_hg_u133a__broad_mit_edu__Level_3__gene_rma__data10000
73Methylation_Preprocess00010
74miRseq_Mature_Preprocess00010
75miRseq_Preprocess00010
76mRNA_Preprocess_Median10000
77mRNAseq_Preprocess00010
78Mutation_Oncotator_Calls5700570
79Mutation_Oncotator_Raw_Calls1140000
80Mutation_Packager_Calls00010
81Mutation_Packager_Coverage00010
82Mutation_Packager_Oncotated_Calls00010
83Mutation_Packager_Oncotated_Raw_Calls10000
84Mutation_Packager_Raw_Calls10000
85Mutation_Packager_Raw_Coverage10000
86RPPA_AnnotateWithGene00010
Total23000820

This table generated on Wed Mar 2 19:32:41 2016