Broad GDAC Standard Data Status
stddata__2016_01_28 Run for Tumor Type: UCS
Cohort
BCR
Clinical
CN
LowP
Methylation
mRNA
mRNASeq
miR
miRSeq
RPPA
MAF
rawMAF
UCS
57
57
56
0
57
0
57
0
56
48
57
0
Note that the links below require Broad internal Firehose login credentials.
Pipeline Dataset
Not Available
Available
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
1
0
0
0
0
3
CreateLoadfile_exon__huex_1_0_st_v2__lbl_gov__Level_3__quantile_normalization_gene__data_NT
1
0
0
0
0
4
CreateLoadfile_paradigm_mRNAseq_exp_RPKM_log2_NB
1
0
0
0
0
5
CreateLoadfile_paradigm_mRNAseq_exp_RPKM_log2_NT
1
0
0
0
0
6
CreateLoadfile_paradigm_mRNAseq_exp_RSEM_log2_NB
1
0
0
0
0
7
CreateLoadfile_paradigm_mRNAseq_exp_RSEM_log2_NT
1
0
0
0
0
8
CreateLoadfile_transcriptome__agilentg4502a_07_3__unc_edu__Level_3__unc_lowess_normalization_gene_level__data_NB
1
0
0
0
0
9
CreateLoadfile_transcriptome__agilentg4502a_07_3__unc_edu__Level_3__unc_lowess_normalization_gene_level__data_NT
1
0
0
0
0
10
CreateLoadfile_transcriptome__ht_hg_u133a__broad_mit_edu__Level_3__gene_rma__data_NB
1
0
0
0
0
11
CreateLoadfile_transcriptome__ht_hg_u133a__broad_mit_edu__Level_3__gene_rma__data_NT
1
0
0
0
0
12
Merge_Clinical
0
0
0
1
0
13
Merge_cna__cgh_1x1m_g4447a__mskcc_org__Level_3__segmentation_data_computation__seg
1
0
0
0
0
14
Merge_cna__hg_cgh_244a__hms_harvard_edu__Level_3__segmentation__seg
1
0
0
0
0
15
Merge_cna__hg_cgh_244a__mskcc_org__Level_3__segmentation_data_computation__seg
1
0
0
0
0
16
Merge_cna__hg_cgh_415k_g4124a__hms_harvard_edu__Level_3__segmentation__seg
1
0
0
0
0
17
Merge_cna__illuminahiseq_dnaseqc__hms_harvard_edu__Level_3__segmentation__seg
1
0
0
0
0
18
Merge_exon__huex_1_0_st_v2__lbl_gov__Level_2__quantile_normalization_exon__data
1
0
0
0
0
19
Merge_exon__huex_1_0_st_v2__lbl_gov__Level_3__quantile_normalization_gene__data
1
0
0
0
0
20
Merge_exon__huex_1_0_st_v2__lbl_gov__Level_3__segmented_as_firma__data
1
0
0
0
0
21
Merge_methylation__humanmethylation27__jhu_usc_edu__Level_3__within_bioassay_data_set_function__data
1
0
0
0
0
22
Merge_methylation__humanmethylation450__jhu_usc_edu__Level_3__within_bioassay_data_set_function__data
0
0
0
1
0
23
Merge_mirna__h_mirna_8x15k__unc_edu__Level_3__unc_DWD_Batch_adjusted__data
1
0
0
0
0
24
Merge_mirna__h_mirna_8x15kv2__unc_edu__Level_3__unc_DWD_Batch_adjusted__data
1
0
0
0
0
25
Merge_mirnaseq__illuminaga_mirnaseq__bcgsc_ca__Level_3__miR_gene_expression__data
1
0
0
0
0
26
Merge_mirnaseq__illuminaga_mirnaseq__bcgsc_ca__Level_3__miR_isoform_expression__data
1
0
0
0
0
27
Merge_mirnaseq__illuminahiseq_mirnaseq__bcgsc_ca__Level_3__miR_gene_expression__data
0
0
0
1
0
28
Merge_mirnaseq__illuminahiseq_mirnaseq__bcgsc_ca__Level_3__miR_isoform_expression__data
0
0
0
1
0
29
Merge_protein_exp__mda_rppa_core__mdanderson_org__Level_3__protein_normalization__data
0
0
0
1
0
30
Merge_rnaseq__illuminaga_rnaseq__bcgsc_ca__Level_3__exon_expression__data
1
0
0
0
0
31
Merge_rnaseq__illuminaga_rnaseq__bcgsc_ca__Level_3__gene_expression__data
1
0
0
0
0
32
Merge_rnaseq__illuminaga_rnaseq__bcgsc_ca__Level_3__splice_junction_expression__data
1
0
0
0
0
33
Merge_rnaseq__illuminaga_rnaseq__unc_edu__Level_3__exon_expression__data
1
0
0
0
0
34
Merge_rnaseq__illuminaga_rnaseq__unc_edu__Level_3__gene_expression__data
1
0
0
0
0
35
Merge_rnaseq__illuminaga_rnaseq__unc_edu__Level_3__splice_junction_expression__data
1
0
0
0
0
36
Merge_rnaseq__illuminahiseq_rnaseq__bcgsc_ca__Level_3__exon_expression__data
1
0
0
0
0
37
Merge_rnaseq__illuminahiseq_rnaseq__bcgsc_ca__Level_3__gene_expression__data
1
0
0
0
0
38
Merge_rnaseq__illuminahiseq_rnaseq__bcgsc_ca__Level_3__splice_junction_expression__data
1
0
0
0
0
39
Merge_rnaseq__illuminahiseq_rnaseq__unc_edu__Level_3__exon_expression__data
1
0
0
0
0
40
Merge_rnaseq__illuminahiseq_rnaseq__unc_edu__Level_3__gene_expression__data
1
0
0
0
0
41
Merge_rnaseq__illuminahiseq_rnaseq__unc_edu__Level_3__splice_junction_expression__data
1
0
0
0
0
42
Merge_rnaseqv2__illuminaga_rnaseqv2__unc_edu__Level_3__exon_quantification__data
1
0
0
0
0
43
Merge_rnaseqv2__illuminaga_rnaseqv2__unc_edu__Level_3__junction_quantification__data
1
0
0
0
0
44
Merge_rnaseqv2__illuminaga_rnaseqv2__unc_edu__Level_3__RSEM_genes__data
1
0
0
0
0
45
Merge_rnaseqv2__illuminaga_rnaseqv2__unc_edu__Level_3__RSEM_genes_normalized__data
1
0
0
0
0
46
Merge_rnaseqv2__illuminaga_rnaseqv2__unc_edu__Level_3__RSEM_isoforms__data
1
0
0
0
0
47
Merge_rnaseqv2__illuminaga_rnaseqv2__unc_edu__Level_3__RSEM_isoforms_normalized__data
1
0
0
0
0
48
Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__exon_quantification__data
0
0
0
1
0
49
Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__junction_quantification__data
0
0
0
1
0
50
Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes__data
0
0
0
1
0
51
Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes_normalized__data
0
0
0
1
0
52
Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_isoforms__data
0
0
0
1
0
53
Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_isoforms_normalized__data
0
0
0
1
0
54
Merge_snp__genome_wide_snp_6__broad_mit_edu__Level_2__birdseed_genotype__birdseed
0
0
0
1
0
55
Merge_snp__genome_wide_snp_6__broad_mit_edu__Level_3__segmented_scna_hg18__seg
0
0
0
1
0
56
Merge_snp__genome_wide_snp_6__broad_mit_edu__Level_3__segmented_scna_hg19__seg
0
0
0
1
0
57
Merge_snp__genome_wide_snp_6__broad_mit_edu__Level_3__segmented_scna_minus_germline_cnv_hg18__seg
0
0
0
1
0
58
Merge_snp__genome_wide_snp_6__broad_mit_edu__Level_3__segmented_scna_minus_germline_cnv_hg19__seg
0
0
0
1
0
59
Merge_snp__human1mduo__hudsonalpha_org__Level_3__segmented_cna__seg
1
0
0
0
0
60
Merge_snp__human1mduo__hudsonalpha_org__Level_3__segmented_cnv__seg
1
0
0
0
0
61
Merge_snp__human1mduo__hudsonalpha_org__Level_3__segmented_loh__seg
1
0
0
0
0
62
Merge_snp__humanhap550__hudsonalpha_org__Level_3__segmented_cna__seg
1
0
0
0
0
63
Merge_snp__humanhap550__hudsonalpha_org__Level_3__segmented_cnv__seg
1
0
0
0
0
64
Merge_snp__humanhap550__hudsonalpha_org__Level_3__segmented_loh__seg
1
0
0
0
0
65
Merge_transcriptome__agilentg4502a_07_1__unc_edu__Level_2__unc_lowess_normalization_probe_level__data
1
0
0
0
0
66
Merge_transcriptome__agilentg4502a_07_1__unc_edu__Level_3__unc_lowess_normalization_gene_level__data
1
0
0
0
0
67
Merge_transcriptome__agilentg4502a_07_2__unc_edu__Level_2__unc_lowess_normalization_probe_level__data
1
0
0
0
0
68
Merge_transcriptome__agilentg4502a_07_2__unc_edu__Level_3__unc_lowess_normalization_gene_level__data
1
0
0
0
0
69
Merge_transcriptome__agilentg4502a_07_3__unc_edu__Level_2__unc_lowess_normalization_probe_level__data
1
0
0
0
0
70
Merge_transcriptome__agilentg4502a_07_3__unc_edu__Level_3__unc_lowess_normalization_gene_level__data
1
0
0
0
0
71
Merge_transcriptome__ht_hg_u133a__broad_mit_edu__Level_2__probeset_rma__data
1
0
0
0
0
72
Merge_transcriptome__ht_hg_u133a__broad_mit_edu__Level_3__gene_rma__data
1
0
0
0
0
73
Methylation_Preprocess
0
0
0
1
0
74
miRseq_Mature_Preprocess
0
0
0
1
0
75
miRseq_Preprocess
0
0
0
1
0
76
mRNA_Preprocess_Median
1
0
0
0
0
77
mRNAseq_Preprocess
0
0
0
1
0
78
Mutation_Oncotator_Calls
57
0
0
57
0
79
Mutation_Oncotator_Raw_Calls
114
0
0
0
0
80
Mutation_Packager_Calls
0
0
0
1
0
81
Mutation_Packager_Coverage
0
0
0
1
0
82
Mutation_Packager_Oncotated_Calls
0
0
0
1
0
83
Mutation_Packager_Oncotated_Raw_Calls
1
0
0
0
0
84
Mutation_Packager_Raw_Calls
1
0
0
0
0
85
Mutation_Packager_Raw_Coverage
1
0
0
0
0
86
RPPA_AnnotateWithGene
0
0
0
1
0
Total
230
0
0
82
0
This table generated on Wed Mar 2 19:32:41 2016