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Datasets details

The table with datasets general information (below) is available here
Extended clinical attributes for all datasets are available at: Breast, Colon, Lung, Prostate


Abbreviations: cds: CoDing Sequence; DFS: Disease Free Survival; ER: Estrogen Receptor; LINCs: Long intergenic non-coding RNA; MFS: Metastasis Free Survival; mRNA: Messenger RNA; OS: Overall Survival

Cancer Study Reference GEO Platform Contains Cohort size StatusSubtypeER statusRecurrence dataDFS data
Ivshina et al. PMID: 17079448 GSE4922Affx HG-U133A, Affx HG-U133B mRNA, LINCs 249 NoNoYesYesYes
Lu et al. PMID: 18297396 GSE5460Affx HG-U133_Plus_2 mRNA, cds, LINCs 131 YesYesYesNoNo
METABRIC 22522925 EGAS00000000098Illumina HumanHT-12 v3 mRNA, LINCs 1980 NoYesYesYesYes
Pawitan et al. PMID: 16280042 GSE1456Affx HG-U133A, Affx HG-U133B mRNA, LINCs 159 NoYesNoYesYes
TCGA raw data at TCGA Agilent G450A_07 array mRNA, LINCs 522 NoYesYesNoNo
Wang et al. PMID: 15721472 GSE2034Affx HG-U133A mRNA, LINCs 286NoNoYesYesYes
Cancer Study Reference GEO Platform Contains Cohort size Status Gender Location dataStage dataRecurrence dataDFS data
Colonomics https://www.colonomics.org/ GSE44076Affx HG-U219 mRNA, cds 246 Yes Yes Yes Yes No No
Jorissen et al. PMID: 19996206 GSE14333Affx HG-U133_Plus_2 mRNA, cds, LINCs 290 No Yes Yes No Yes Yes
Kemper et al. PMID: 22496204 GSE33113Affx HG-U133_Plus_2 mRNA, cds, LINCs 90 No Yes No No Yes Yes
Laibe et al. PMID: 22917480 GSE37892Affx HG-U133_Plus_2 mRNA, cds, LINCs 130 No Yes Yes Yes No No
Marisa et al. PMID: 23700391 GSE39582Affx HG-U133_Plus_2 mRNA, cds, LINCs 585 Yes Yes Yes Yes Yes Yes
Roepman et al. PMID: 23852808 GSE42284Agilent Homo sapiens 37K DiscoverPrint_19742 mRNA, cds 188 No Yes Yes Yes No No
TCGA (RNAseq) raw data at TCGA RNA Seq mRNA, LINCs 374 No Yes Yes No Yes Yes
Cancer Study Reference GEO Platform Contains Cohort size Status StageOS dataMFS dataDFS dataEGFR mutantKRAS mutant
Chitale et al. PMID: 19525976 http://cbio.mskcc.org/public/lung_array_data/Affx HG-U133_Plus_2 mRNA, LINCs 128 No Yes Yes Yes No Yes Yes
Okayama et al. PMID: 22080568 GSE31210Affx HG-U133_Plus_2 mRNA, cds, LINCs 246 YesYes Yes No Yes YesYes
Shedden et al. PMID: 18641660 GSE68465Affx HG-U133A mRNA, LINCs 442 No No Yes No No NoNo
TCGA (RNAseq) raw data at TCGA RNA Seq mRNA, LINCs 514 No Yes Yes No No NoNo
Wilkerson et al. PMID: 22590557 GSE26939Agilent UNC custom 4X44K mRNA 116 No Yes Yes No No YesYes
Cancer Study Reference GEO Platform ContainsCohort size Status SubtypeGleason ScoreRecurrence dataDFS data
Glinsky et al. PMID: 15067324 Donated by MSKCCAffx HG-U133A mRNA, cds, LINCs 79 No No Yes Yes Yes
Grasso et al. PMID: 22722839 GSE35988Agilent-014850 Whole Human Genome Microarray 4x44K G4112F mRNA, LINCs 88 Yes Yes No No No
Lapointe et al. PMID: 14711987 GSE3933Own platform (GPL2695) mRNA 26 Yes Yes No No No
Taylor et al. PMID: 20579941 GSE21034Affx Human Exon 1.0 ST mRNA 179 Yes Yes Yes Yes Yes
TCGA (RNAseq) raw data at TCGA RNA Seq mRNA 496 No No Yes Yes Yes
Tomlins et al. PMID: 17173048 GSE6099Own platform (GPL2013) mRNA, LINCs 75 Yes Yes No No No
Varambally et al. PMID: 16286247 GSE3325Affx HG-U133_Plus_2 mRNA, LINCs 19 Yes Yes No No No