association	dataset	threshold value	standardized value
LXF-289	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.912409
AP-2rep	MotifMap Predicted Transcription Factor Targets	1.0	null
KARPAS-1106P	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.89298
H3K27me3_T-cell acute lymphoblastic leukemia_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MOLP-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.957887
SAP30	ENCODE Transcription Factor Targets	1.0	null
LOX-IMVI	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.958616
928 MEL	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.860062
JHOS2	CCLE Cell Line Gene CNV Profiles	-1.0	-2.59447
reveal	GeneRIF Biological Term Annotations	1.0	null
UM-UC-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.34135
HCC38	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.05996
ETS2	MotifMap Predicted Transcription Factor Targets	1.0	null
H3K9me3_H9	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
HUH7	CCLE Cell Line Gene CNV Profiles	1.0	2.36415
HSC-3	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.91268
PANC 05.04	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.920406
20448109-Table2	GeneSigDB Published Gene Signatures	1.0	null
MDA-MB-436	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.24342
HDAC2	ENCODE Transcription Factor Targets	1.0	null
G96	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.865871
19924232-TableS2	GeneSigDB Published Gene Signatures	1.0	null
LUDLU1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.34077
CTCF	ENCODE Transcription Factor Targets	1.0	null
HCC1162	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.24342
OV56	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.829074
NCI-H2030	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.46785
NCIH747	CCLE Cell Line Gene CNV Profiles	-1.0	-1.66853
mirna	GeneRIF Biological Term Annotations	1.0	null
COLO 800	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.42255
HGC-27	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.865871
CMK	CCLE Cell Line Gene CNV Profiles	1.0	1.34573
19807731-Figure1	GeneSigDB Published Gene Signatures	1.0	null
HCC1599	CCLE Cell Line Gene CNV Profiles	-1.0	-1.81034
TEF-1	MotifMap Predicted Transcription Factor Targets	1.0	null
H3K36me3_cardiac mesoderm_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EFM-192C	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.80432
NCIH727	CCLE Cell Line Gene CNV Profiles	1.0	1.36131
NCIH2073	CCLE Cell Line Gene CNV Profiles	-1.0	-1.41517
STAT3_MCF 10A_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCI-H1793	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.15525
occur	GeneRIF Biological Term Annotations	1.0	null
GATA1_MEL cell line_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TCC-PAN2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.957887
NCI-H1435	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.10432
KLE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00222
KYSE-30	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.05996
VCAP	CCLE Cell Line Gene CNV Profiles	-1.0	-1.51581
SIHA	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.89168
H3K4me1_spleen_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
MDA-MB-361	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00222
ONCODG1	CCLE Cell Line Gene CNV Profiles	1.0	2.20946
SW 948	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.72772
SW 403	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.66491
OVCA 429	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.0396
DOR 13	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.874151
SNU5	CCLE Cell Line Gene CNV Profiles	1.0	1.51466
fndings	GeneRIF Biological Term Annotations	1.0	null
HEY	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.58647
SK-MEL-31	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.22804
HCC1143	CCLE Cell Line Gene CNV Profiles	-1.0	-1.86417
CH157MN	CCLE Cell Line Gene CNV Profiles	-1.0	-1.36419
OV7	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.874151
G121	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.22804
NCIH1651	CCLE Cell Line Gene CNV Profiles	1.0	2.00702
HT-55	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00504
OCI-M1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.00459
HCC70	CCLE Cell Line Gene CNV Profiles	-1.0	-1.38507
HUP-T4	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.2036
OAW42	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.874151
H3K79me2_skeletal muscle myoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
GR	MotifMap Predicted Transcription Factor Targets	1.0	null
HDAC2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CMK115	CCLE Cell Line Gene CNV Profiles	1.0	1.68857
H4K20me1_myotube_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K79me2_osteoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
IGR1	CCLE Cell Line Gene CNV Profiles	1.0	1.64425
oncofetal	GeneRIF Biological Term Annotations	1.0	null
pyrazinamide_mus musculus_gpl6246_gse48027	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
STAT3-18555785-MESC-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
ME-180	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00222
GCIY	CCLE Cell Line Gene CNV Profiles	1.0	1.619
CTCF_pancreas_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SNU308	CCLE Cell Line Gene CNV Profiles	-1.0	-1.49638
SCABER	CCLE Cell Line Gene CNV Profiles	1.0	3.2803
UMUC3	CCLE Cell Line Gene CNV Profiles	-1.0	-1.42182
diverse	GeneRIF Biological Term Annotations	1.0	null
20028859-TableS2	GeneSigDB Published Gene Signatures	1.0	null
changes	GeneRIF Biological Term Annotations	1.0	null
NCIH650	CCLE Cell Line Gene CNV Profiles	-1.0	-2.09288
42-MG-BA	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.91268
STAT3	ENCODE Transcription Factor Targets	1.0	null
MOLM-16	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.29566
SW 780	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.921162
TE8	CCLE Cell Line Gene CNV Profiles	1.0	2.09602
KDM5A	ENCODE Transcription Factor Targets	1.0	null
HCC1954	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.05042
RPMI7951	CCLE Cell Line Gene CNV Profiles	1.0	1.51016
EZH2	ENCODE Transcription Factor Targets	1.0	null
20485376-TableS3	GeneSigDB Published Gene Signatures	1.0	null
SW 1463	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.22804
HBL-100	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.958616
AU565	CCLE Cell Line Gene CNV Profiles	1.0	1.35225
EW8	CCLE Cell Line Gene CNV Profiles	1.0	1.42192
20485376-TableS4	GeneSigDB Published Gene Signatures	1.0	null
TT	CCLE Cell Line Gene CNV Profiles	-1.0	-1.68168
ZR-75-30	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.874151
NCIH1703	CCLE Cell Line Gene CNV Profiles	-1.0	-1.33171
LOU-NH91	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.11456
H3K36me3_CD14-positive monocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A_endothelial cell of umbilical vein_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mirnas	GeneRIF Biological Term Annotations	1.0	null
JHH2	CCLE Cell Line Gene CNV Profiles	-1.0	-2.3514
NCI-H1373	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.01306
Cocaine-Related Disorders	CTD Gene-Disease Associations	1.0	2.88009
COR-L311	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.91268
COLO-783	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.860062
HDAC6	ENCODE Transcription Factor Targets	1.0	null
UACC-812	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.952196
MDAMB361	CCLE Cell Line Gene CNV Profiles	1.0	1.93506
one	GeneRIF Biological Term Annotations	1.0	null
NCI-H650	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.98792
PC14	CCLE Cell Line Gene CNV Profiles	-1.0	-1.92862
FADU	CCLE Cell Line Gene CNV Profiles	1.0	1.77113
G292CLONEA141B1	CCLE Cell Line Gene CNV Profiles	1.0	1.56404
HOS	CCLE Cell Line Gene CNV Profiles	1.0	1.87312
HSC3	CCLE Cell Line Gene CNV Profiles	-1.0	-3.21049
MFM-223	COSMIC Cell Line Gene CNV Profiles	1.0	2.15726
SK23	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.25208
POLR2A	ENCODE Transcription Factor Targets	1.0	null
relevant	GeneRIF Biological Term Annotations	1.0	null
G120	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.29397
143B	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.18952
NCI-H3122	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.91268
H3K9me3_HeLa-S3_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
KMH-2	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.91268
KE39	CCLE Cell Line Gene CNV Profiles	-1.0	-1.61021
NIH:OVCAR-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	3.18901
FU97	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.22804
H3K27me3_CD14-positive monocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCI-N417	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.46305
DMS 273	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.952196
SNU-182	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.05996
HCC1359	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.921162
STAT3	ChEA Transcription Factor Targets	1.0	null
PK-59	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.10432
H3K9me1_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
T47D	CCLE Cell Line Gene CNV Profiles	1.0	1.49251
HCC38	CCLE Cell Line Gene CNV Profiles	-1.0	-2.20312
NCI-H650	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.91268
H3K36me3_MEL cell line_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HCC89	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.22991
SKBR3	CCLE Cell Line Gene CNV Profiles	1.0	1.41853
NCIH3255	CCLE Cell Line Gene CNV Profiles	1.0	1.57401
U2OS	CCLE Cell Line Gene CNV Profiles	1.0	1.81971
NCIH1793	CCLE Cell Line Gene CNV Profiles	-1.0	-1.75591
LN-229	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.874151
MS751	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.03292
SQ1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.56964
HCC366	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.27887
Myocardial Reperfusion Injury	CTD Gene-Disease Associations	1.0	2.88009
OCI-LY-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.957887
RBBP5_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RMUG-S	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.10432
HCC2279	CCLE Cell Line Gene CNV Profiles	-1.0	-1.5526
NIHOVCAR3	CCLE Cell Line Gene CNV Profiles	1.0	2.59998
H4K20me1_HeLa-S3_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
HCC2911	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.96859
COV362	CCLE Cell Line Gene CNV Profiles	1.0	1.37133
HDQ-P1	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.91268
CTCF_GM20000_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HCC44	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.69924
MX-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.09216
SAP30_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HCC2157	CCLE Cell Line Gene CNV Profiles	1.0	1.71848
MG-63	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.958616
H3K9me3_Brain Hippocampus Middle	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
HCC1143	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.34135
hcc	GeneRIF Biological Term Annotations	1.0	null
MDA-MB-157	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.48683
HDAC6_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MFM-223	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.44897
19924232-TableS1	GeneSigDB Published Gene Signatures	1.0	null
H4K20me1_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
LC1SQSF	CCLE Cell Line Gene CNV Profiles	-1.0	-2.00401
HCC1428	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.16371
MDA-MB-415	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.59163
KDM5A_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K9ac_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
HCC1954	CCLE Cell Line Gene CNV Profiles	1.0	1.35085
CTCF_GM12875_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
DANG	CCLE Cell Line Gene CNV Profiles	-1.0	-1.43912
diagnosis	GeneRIF Biological Term Annotations	1.0	null
SNU-16	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00504
NCI-H2009	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.91268
EB1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.99243
KP-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.39255
NCIH1568	CCLE Cell Line Gene CNV Profiles	-1.0	-1.46008
EZH2_keratinocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
COV362	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.16371
NCI-H727	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.988709
SNU-C1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.05996
liver	GeneRIF Biological Term Annotations	1.0	null
GATA1	ENCODE Transcription Factor Targets	1.0	null
EFM-192A	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.48555
PR, GR	MotifMap Predicted Transcription Factor Targets	1.0	null
FU97	CCLE Cell Line Gene CNV Profiles	1.0	1.45533
RBBP5	ENCODE Transcription Factor Targets	1.0	null
BRCA1	JASPAR Predicted Transcription Factor Targets	1.0	null
MDA-MB-175-VII	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.829074