Event Calls

GAM (Genomic Alteration Matrix) Files

File Name	Description	File Size	Date Stamp	Contact	Email
pancan_gam_3299.txt	Unfiltered GAM for 3,299 samples	~3 MB	5/31/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org
pancan_gam_3299_cnd.txt	Filtered GAM for copy number driven genes (CN-Altered class)	~3 MB	5/31/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org
pancan_gam_3299_hsm.txt	Filtered GAM for hotspot mutations (Mutated class)	~3 MB	5/31/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org
pancan_gam_3299_cndhsm.txt	GAM with filtered calls only	~3 MB	5/31/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org

Case Lists

Tumors with sequencing and aCGH data

File Name	Description	No. of Cases	Date Stamp	Contact	Email
BLCA_cnamut_complete.txt	BLCA	97	2/12/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org
BRCA_cnamut_complete.txt	BRCA	488	2/12/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org
COADREAD_cnamut_complete.txt	COADREAD	492	2/12/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org
GBM_cnamut_complete.txt	GBM	265	2/12/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org
HNSC_cnamut_complete.txt	HNSC	302	2/12/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org
KIRC_cnamut_complete.txt	KIRC	420	2/12/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org
LAML_cnamut_complete.txt	LAML	190	2/12/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org
LUAD_cnamut_complete.txt	LUAD	230	2/12/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org
LUSC_cnamut_complete.txt	LUSC	181	2/12/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org
OV_cnamut_complete.txt	OV	447	2/12/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org
UCEC_cnamut_complete.txt	UCEC	242	2/12/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org

Mutation Data

Annotated MAFs (hg19)

File Name	Description	File Size	Date Stamp	Contact	Email
BLCA.maf	BLCA	19 MB	2/12/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org
BRCA.maf	BRCA	26 MB	2/12/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org
COADREAD.maf	COADREAD	124 MB	2/12/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org
GBM.maf	GBM	45 MB	2/12/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org
HNSC.maf	HNSC	86 MB	2/12/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org
KIRC.maf	KIRC	18 MB	2/12/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org
LAML.maf	LAML	4 MB	2/12/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org
LUAD.maf	LUAD	95 MB	2/12/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org
LUSC.maf	LUSC	88 MB	2/12/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org
OV.maf	OV	24 MB	2/12/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org
UCEC.maf	UCEC	122 MB	2/12/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org

Copy Number Data

GISTIC Thresholded by genes (Source: FireHose)

File Name	Description	File Size	Date Stamp	Contact	Email	Segmentation File
blca_CNA_data.txt	BLCA	8 MB	2/4/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org	SEG
brca_CNA_data.txt	BRCA	46 MB	2/4/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org	SEG
coadread_CNA_data.txt	COADREAD	31 MB	2/4/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org	SEG
gbm_CNA_data.txt	GBM	30 MB	2/4/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org	SEG
hnsc_CNA_data.txt	HNSC	17 MB	2/4/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org	SEG
kirc_CNA_data.txt	KIRC	26 MB	2/4/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org	SEG
laml_CNA_data.txt	LAML	10 MB	2/4/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org	SEG
luad_CNA_data.txt	LUAD	20 MB	2/4/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org	SEG
lusc_CNA_data.txt	LUSC	17 MB	2/4/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org	SEG
ov_CNA_data.txt	OV	33 MB	2/4/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org	SEG
ucec_CNA_data.txt	UCEC	23 MB	2/4/2013	Giovanni Ciriello, MSKCC	ciriello@cbio.mskcc.org	SEG