association	dataset	threshold value	standardized value
HCC2911	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.96859
G120	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.29397
JHH2	CCLE Cell Line Gene CNV Profiles	-1.0	-2.3514
20054351-Table2	GeneSigDB Published Gene Signatures	1.0	null
OV7	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.874151
SCABER	CCLE Cell Line Gene CNV Profiles	1.0	3.2803
NCI-H650	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.98792
MX-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.09216
H3K9me3_Brain Hippocampus Middle	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
HCC366	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.27887
HCC70	CCLE Cell Line Gene CNV Profiles	-1.0	-1.38507
OVCA 429	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.0396
IGR1	CCLE Cell Line Gene CNV Profiles	1.0	1.64425
H4K20me1_myotube_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
metastasis	GeneRIF Biological Term Annotations	1.0	null
MOLM-16	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.29566
HCC2279	CCLE Cell Line Gene CNV Profiles	-1.0	-1.5526
HGC-27	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.865871
NCI-H650	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.91268
H3K27me3_megakaryocyte_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2A	ENCODE Transcription Factor Targets	1.0	null
RAD21_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FU97	CCLE Cell Line Gene CNV Profiles	1.0	1.45533
H3K79me2_myocyte_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
NCIH1568	CCLE Cell Line Gene CNV Profiles	-1.0	-1.46008
suppressor	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
RBBP5_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
LC1SQSF	CCLE Cell Line Gene CNV Profiles	-1.0	-2.00401
HCC44	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.69924
NCI-H2030	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.46785
EFM-192A	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.48555
MDA-MB-175-VII	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.829074
nfkappab	GeneRIF Biological Term Annotations	1.0	null
CTCF	ENCODE Transcription Factor Targets	1.0	null
EB1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.99243
NCI-H2009	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.91268
OAW42	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.874151
CMK	CCLE Cell Line Gene CNV Profiles	1.0	1.34573
KDM5A	ENCODE Transcription Factor Targets	1.0	null
SNU5	CCLE Cell Line Gene CNV Profiles	1.0	1.51466
ZR-75-30	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.874151
HCC89	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.22991
NIH:OVCAR-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	3.18901
KE39	CCLE Cell Line Gene CNV Profiles	-1.0	-1.61021
MG-63	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.958616
gastric	GeneRIF Biological Term Annotations	1.0	null
20485376-TableS3	GeneSigDB Published Gene Signatures	1.0	null
GCIY	CCLE Cell Line Gene CNV Profiles	1.0	1.619
UACC-812	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.952196
G292CLONEA141B1	CCLE Cell Line Gene CNV Profiles	1.0	1.56404
PK-59	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.10432
EZH2	ENCODE Transcription Factor Targets	1.0	null
EZH2_keratinocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
OCI-M1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.00459
LUDLU1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.34077
MDA-MB-157	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.48683
UMUC3	CCLE Cell Line Gene CNV Profiles	-1.0	-1.42182
NCIH2073	CCLE Cell Line Gene CNV Profiles	-1.0	-1.41517
HCC1954	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.05042
NCI-N417	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.46305
H3K36me3_G1E_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SNU-C1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.05996
SW 403	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.66491
HUH7	CCLE Cell Line Gene CNV Profiles	1.0	2.36415
Hyperplasia	CTD Gene-Disease Associations	1.0	1.17034
DANG	CCLE Cell Line Gene CNV Profiles	-1.0	-1.43912
H3K36me3_cardiac mesoderm_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCIH1703	CCLE Cell Line Gene CNV Profiles	-1.0	-1.33171
DOR 13	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.874151
H3K9me3_HeLa-S3_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
SW 948	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.72772
KLE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00222
EW8	CCLE Cell Line Gene CNV Profiles	1.0	1.42192
H4K20me1_HeLa-S3_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
SNU-16	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00504
G121	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.22804
KMH-2	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.91268
CHD1_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
MDA-MB-361	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00222
HCC1359	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.921162
SAP30	ENCODE Transcription Factor Targets	1.0	null
HCC1599	CCLE Cell Line Gene CNV Profiles	-1.0	-1.81034
MFM-223	COSMIC Cell Line Gene CNV Profiles	1.0	2.15726
COV362	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.16371
H3K27me3_CD14-positive monocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KARPAS-1106P	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.89298
NCIH650	CCLE Cell Line Gene CNV Profiles	-1.0	-2.09288
KYSE-30	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.05996
present	GeneRIF Biological Term Annotations	1.0	null
HBL-100	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.958616
CTCF_pancreas_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_GM12875_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RBBP5	ENCODE Transcription Factor Targets	1.0	null
COLO-783	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.860062
LOU-NH91	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.11456
GATA2	JASPAR Predicted Transcription Factor Targets	1.0	null
RPMI7951	CCLE Cell Line Gene CNV Profiles	1.0	1.51016
HDAC2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
COR-L311	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.91268
DMS 273	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.952196
ME-180	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00222
H3K36me3_G1E_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
targeting	GeneRIF Biological Term Annotations	1.0	null
RAD21	ENCODE Transcription Factor Targets	1.0	null
NCIH1793	CCLE Cell Line Gene CNV Profiles	-1.0	-1.75591
H3K36me3_CD14-positive monocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TE8	CCLE Cell Line Gene CNV Profiles	1.0	2.09602
NCI-H727	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.988709
OV56	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.829074
U2OS	CCLE Cell Line Gene CNV Profiles	1.0	1.81971
H3K9me1_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
E2A	MotifMap Predicted Transcription Factor Targets	1.0	null
CHD1	ENCODE Transcription Factor Targets	1.0	null
EFM-192C	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.80432
H3K27me3_T-cell acute lymphoblastic leukemia_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
COV362	CCLE Cell Line Gene CNV Profiles	1.0	1.37133
VCAP	CCLE Cell Line Gene CNV Profiles	-1.0	-1.51581
T47D	CCLE Cell Line Gene CNV Profiles	1.0	1.49251
HCC1162	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.24342
19924232-TableS1	GeneSigDB Published Gene Signatures	1.0	null
promotes	GeneRIF Biological Term Annotations	1.0	null
MDA-MB-415	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.59163
TT	CCLE Cell Line Gene CNV Profiles	-1.0	-1.68168
SW 1463	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.22804
CH157MN	CCLE Cell Line Gene CNV Profiles	-1.0	-1.36419
cyld	GeneRIF Biological Term Annotations	1.0	null
143B	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.18952
ONCODG1	CCLE Cell Line Gene CNV Profiles	1.0	2.20946
H4K20me1_H1-hESC_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
YY1	JASPAR Predicted Transcription Factor Targets	1.0	null
20485376-TableS4	GeneSigDB Published Gene Signatures	1.0	null
JHOS2	CCLE Cell Line Gene CNV Profiles	-1.0	-2.59447
KDM5A_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HSC3	CCLE Cell Line Gene CNV Profiles	-1.0	-3.21049
STAT3	ENCODE Transcription Factor Targets	1.0	null
HOS	CCLE Cell Line Gene CNV Profiles	1.0	1.87312
MOLP-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.957887
NCIH3255	CCLE Cell Line Gene CNV Profiles	1.0	1.57401
PC14	CCLE Cell Line Gene CNV Profiles	-1.0	-1.92862
HEY	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.58647
MS751	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.03292
OCI-LY-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.957887
HUP-T4	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.2036
SK23	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.25208
20086245-Table2b	GeneSigDB Published Gene Signatures	1.0	null
SQ1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.56964
42-MG-BA	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.91268
KP-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.39255
SW 780	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.921162
NCIH727	CCLE Cell Line Gene CNV Profiles	1.0	1.36131
RMUG-S	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.10432
NCI-H1435	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.10432
NCIH747	CCLE Cell Line Gene CNV Profiles	-1.0	-1.66853
Inflammation	CTD Gene-Disease Associations	1.0	1.15324
H3K79me2_osteoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
HCC1954	CCLE Cell Line Gene CNV Profiles	1.0	1.35085
H3K9me1_keratinocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
HCC1143	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.34135
MDA-MB-436	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.24342
FADU	CCLE Cell Line Gene CNV Profiles	1.0	1.77113
CMK115	CCLE Cell Line Gene CNV Profiles	1.0	1.68857
H3K36me3_G1E_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K27me3_megakaryocyte_mm9_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
COLO 800	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.42255
AU565	CCLE Cell Line Gene CNV Profiles	1.0	1.35225
20448109-Table2	GeneSigDB Published Gene Signatures	1.0	null
SK-MEL-31	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.22804
LXF-289	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.912409
MDAMB361	CCLE Cell Line Gene CNV Profiles	1.0	1.93506
STAT3_MCF 10A_hg19_2	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
HCC1428	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.16371
HDAC2	ENCODE Transcription Factor Targets	1.0	null
Myocardial Reperfusion Injury	CTD Gene-Disease Associations	1.0	2.88009
NCI-H3122	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.91268
HSC-3	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.91268
NIHOVCAR3	CCLE Cell Line Gene CNV Profiles	1.0	2.59998
SIHA	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.89168
pyrazinamide_mus musculus_gpl6246_gse48027	GEO Signatures of Differentially Expressed Genes for Small Molecules	-1.0	null
LN-229	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.874151
NCIH1651	CCLE Cell Line Gene CNV Profiles	1.0	2.00702
TCC-PAN2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.957887
SAP30_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PANC 05.04	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.920406
SKBR3	CCLE Cell Line Gene CNV Profiles	1.0	1.41853
NCI-H1373	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.01306
HT-55	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00504
FU97	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.22804
928 MEL	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.860062
HCC38	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.05996
LOX-IMVI	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.958616
H3K27me3_megakaryocyte_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mirnamediated	GeneRIF Biological Term Annotations	1.0	null
NCI-H1793	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.15525
HCC1143	CCLE Cell Line Gene CNV Profiles	-1.0	-1.86417
SNU-182	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.05996
HCC2157	CCLE Cell Line Gene CNV Profiles	1.0	1.71848
HCC38	CCLE Cell Line Gene CNV Profiles	-1.0	-2.20312
G96	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.865871
HDQ-P1	COSMIC Cell Line Gene CNV Profiles	-1.0	-2.91268
SNU308	CCLE Cell Line Gene CNV Profiles	-1.0	-1.49638
repressing	GeneRIF Biological Term Annotations	1.0	null
hepatocellular	GeneRIF Biological Term Annotations	1.0	null