Table 1 Description of data provided by BRCA-Pathway: data type, data size, and data source
Data type | Data size | Data source |
|---|---|---|
Clinical | 1098 patients | Standardized analysis-ready TCGA |
22 attributes | data, | |
1098 rows | Broad Institute TCGA genome | |
Expression | 1093 patients | data analysis center (2016): |
20,531 genes | Firehose stddata__2016_01_28 | |
22,440,383 rows | run. Broad Institute of MIT and | |
Mutation | 977 patients | Harvard. |
17,280 genes | doi:10.7908/C11G0KM9 | |
86,765 rows | ||
CNV | 1080 patients | Broad Institute TCGA genome |
24,776 genes | data analysis center (2016): | |
26,758,080 rows | SNP6 copy number analysis (GISTIC2). Broad Institute of MIT and Harvard.doi:10.7908/C1NP23RQ | |
KEGG pathway | 307 pathways | Kyoto encyclopedia of genes and genomes (KEGG) |
Transcription factors | 85,314 TF-TG pairs | Human transcriptional regulation interaction database |
(HTRIdb) | ||
Molecular signatures database (MSigDB) | ||
Hallmark gene sets | 50 Hallmark gene sets | Molecular signatures database (MSigDB) |
Driver genes | 486 driver genes | Cancer gene census in COSMIC database |
Vogelstein, Bert, et al. “Cancer genome landscapes.” science | ||
339.6127 (2013): 1546-1558. Table S2A |