association	dataset	threshold value	standardized value
cebpa	GeneRIF Biological Term Annotations	1.0	null
upregulating	GeneRIF Biological Term Annotations	1.0	null
PK-45H	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.961975
genetic	GeneRIF Biological Term Annotations	1.0	null
immune	GeneRIF Biological Term Annotations	1.0	null
malignant	GeneRIF Biological Term Annotations	1.0	null
view	GeneRIF Biological Term Annotations	1.0	null
miRNAs involved in DNA damage response(Homo sapiens)	WikiPathways Pathways 2014	1.0	null
KPL-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.890342
endothelial	GeneRIF Biological Term Annotations	1.0	null
polymorphism	GeneRIF Biological Term Annotations	1.0	null
NCI-H1299	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.20634
16934749-Table3	GeneSigDB Published Gene Signatures	1.0	null
SNU46	CCLE Cell Line Gene CNV Profiles	-1.0	-1.42083
SNU-449	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.53729
induce	GeneRIF Biological Term Annotations	1.0	null
miR-targeted genes in lymphocytes - TarBase(Homo sapiens)	WikiPathways Pathways 2014	1.0	null
adult	GeneRIF Biological Term Annotations	1.0	null
G96	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.39684
stem	GeneRIF Biological Term Annotations	1.0	null
EBC-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.17697
EFM-19	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.973022
REST_01_338	KnockTF Gene Expression Profiles with Transcription Factor Perturbations	-1.0	-0.74185
cebpalphap30	GeneRIF Biological Term Annotations	1.0	null
oral	GeneRIF Biological Term Annotations	1.0	null
STAT4	MotifMap Predicted Transcription Factor Targets	1.0	null
mir181a	GeneRIF Biological Term Annotations	1.0	null
NCI-H810	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.29714
19895320-Table2	GeneSigDB Published Gene Signatures	1.0	null
C32TG	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.1404
SCC-15	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.32016
NCI-H1770	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.29714
pten	GeneRIF Biological Term Annotations	1.0	null
SK-MES-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.824747
NCI-H1048	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.935018
cdon	GeneRIF Biological Term Annotations	1.0	null
rafts	GeneRIF Biological Term Annotations	1.0	null
highrisk	GeneRIF Biological Term Annotations	1.0	null
BHY	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.06979
site	GeneRIF Biological Term Annotations	1.0	null
higher	GeneRIF Biological Term Annotations	1.0	null
ARNT	ChEA Transcription Factor Targets	1.0	null
emt	GeneRIF Biological Term Annotations	1.0	null
knockdown	GeneRIF Biological Term Annotations	1.0	null
LCLC-103H	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.21893
NCI-H1781	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.53729
squamous	GeneRIF Biological Term Annotations	1.0	null
pluripotent	GeneRIF Biological Term Annotations	1.0	null
activationinduced	GeneRIF Biological Term Annotations	1.0	null
mir143	GeneRIF Biological Term Annotations	1.0	null
RPMI 8226	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.824747
YMB1	CCLE Cell Line Gene CNV Profiles	1.0	1.58219
CREBBP	ENCODE Transcription Factor Targets	1.0	null
mir193b	GeneRIF Biological Term Annotations	1.0	null
shsy5y	GeneRIF Biological Term Annotations	1.0	null
activities	GeneRIF Biological Term Annotations	1.0	null
20485376-TableS3	GeneSigDB Published Gene Signatures	1.0	null
groups	GeneRIF Biological Term Annotations	1.0	null
heavy	GeneRIF Biological Term Annotations	1.0	null
deregulations	GeneRIF Biological Term Annotations	1.0	null
NCI-H2052	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.825809
miRNA Regulation of DNA Damage Response(Homo sapiens)	WikiPathways Pathways 2014	1.0	null
DU4475	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.14266
EP300_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
transition	GeneRIF Biological Term Annotations	1.0	null
enhanced	GeneRIF Biological Term Annotations	1.0	null
mir15a	GeneRIF Biological Term Annotations	1.0	null
presence	GeneRIF Biological Term Annotations	1.0	null
NCI-H1975	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.12264
FOXA1_ECC-1_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
JHOS4	CCLE Cell Line Gene CNV Profiles	1.0	1.3307
GATA2	JASPAR Predicted Transcription Factor Targets	1.0	null
H3K9ac_Brain Substantia Nigra	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
increase	GeneRIF Biological Term Annotations	1.0	null
oncogene	GeneRIF Biological Term Annotations	1.0	null
GATA3_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mesolimbic	GeneRIF Biological Term Annotations	1.0	null
H3K36me3_endothelial cell of umbilical vein_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
gbm	GeneRIF Biological Term Annotations	1.0	null
JIMT-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.870495
TEF-1	MotifMap Predicted Transcription Factor Targets	1.0	null
KPNSI9S	CCLE Cell Line Gene CNV Profiles	1.0	1.69902
MM.1S	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.17367
20068076-SuppTable4	GeneSigDB Published Gene Signatures	1.0	null
prognostic	GeneRIF Biological Term Annotations	1.0	null
neuroblastomas	GeneRIF Biological Term Annotations	1.0	null
breast	GeneRIF Biological Term Annotations	1.0	null
UMUC3	CCLE Cell Line Gene CNV Profiles	-1.0	-2.31592
SPI1	ENCODE Transcription Factor Targets	1.0	null
related	GeneRIF Biological Term Annotations	1.0	null
formation	GeneRIF Biological Term Annotations	1.0	null
105KC	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.36098
HCC2911	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.16428
POLR2A	ENCODE Transcription Factor Targets	1.0	null
20485376-TableS4	GeneSigDB Published Gene Signatures	1.0	null
OCI-AML2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.77866
downregulated	GeneRIF Biological Term Annotations	1.0	null
OKAJIMA	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.20544
non	GeneRIF Biological Term Annotations	1.0	null
CHP-212	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00846
targeting	GeneRIF Biological Term Annotations	1.0	null
H3K9me3_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
mir98	GeneRIF Biological Term Annotations	1.0	null
atm	GeneRIF Biological Term Annotations	1.0	null
macrophages	GeneRIF Biological Term Annotations	1.0	null
mirna181a	GeneRIF Biological Term Annotations	1.0	null
RBBP5	ENCODE Transcription Factor Targets	1.0	null
cytogenetically	GeneRIF Biological Term Annotations	1.0	null
HCC193	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.20634
ZR7530	CCLE Cell Line Gene CNV Profiles	1.0	1.40501
upregulation	GeneRIF Biological Term Annotations	1.0	null
SJCRH30	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.66226
comprise	GeneRIF Biological Term Annotations	1.0	null
H2AFZ	ENCODE Transcription Factor Targets	1.0	null
C32	COSMIC Cell Line Gene CNV Profiles	1.0	2.14116
DB	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.51649
H2AFZ_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
pulmonary	GeneRIF Biological Term Annotations	1.0	null
cytoskeleton	GeneRIF Biological Term Annotations	1.0	null
NB1	CCLE Cell Line Gene CNV Profiles	1.0	1.68812
moleculerelateddownregulated	GeneRIF Biological Term Annotations	1.0	null
mir16	GeneRIF Biological Term Annotations	1.0	null
Cocaine-Related Disorders	CTD Gene-Disease Associations	1.0	2.88009
LP-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.72034
mitochondrial	GeneRIF Biological Term Annotations	1.0	null
microrna181a	GeneRIF Biological Term Annotations	1.0	null
prevention	GeneRIF Biological Term Annotations	1.0	null
thyroid	GeneRIF Biological Term Annotations	1.0	null
pgr	GeneRIF Biological Term Annotations	1.0	null
subunits	GeneRIF Biological Term Annotations	1.0	null
effect	GeneRIF Biological Term Annotations	1.0	null
PC3	CCLE Cell Line Gene CNV Profiles	-1.0	-1.62339
upa	GeneRIF Biological Term Annotations	1.0	null
downregulation	GeneRIF Biological Term Annotations	1.0	null
SKRC31	CCLE Cell Line Gene CNV Profiles	1.0	1.49495
H3K36me3_osteoblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HCC1011	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.32016
mapksnai2	GeneRIF Biological Term Annotations	1.0	null
C32	CCLE Cell Line Gene CNV Profiles	1.0	2.51092
CAOV4	CCLE Cell Line Gene CNV Profiles	1.0	3.2803
dexamethasone_homo sapiens_gpl6244_gse20963	GEO Signatures of Differentially Expressed Genes for Small Molecules	1.0	null
GATA3	JASPAR Predicted Transcription Factor Targets	1.0	null
system	GeneRIF Biological Term Annotations	1.0	null
MHHES1	CCLE Cell Line Gene CNV Profiles	1.0	1.3401
peripheral	GeneRIF Biological Term Annotations	1.0	null
metabolic	GeneRIF Biological Term Annotations	1.0	null
plasminogen	GeneRIF Biological Term Annotations	1.0	null
facilitate	GeneRIF Biological Term Annotations	1.0	null
NCI-H1792	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.70347
enhancerbinding	GeneRIF Biological Term Annotations	1.0	null
liver	GeneRIF Biological Term Annotations	1.0	null
tnfalphatreated	GeneRIF Biological Term Annotations	1.0	null
POLR2AphosphoS2_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
suppress	GeneRIF Biological Term Annotations	1.0	null
YAPC	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.5911
UM-UC-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.09942
proliferation	GeneRIF Biological Term Annotations	1.0	null
crosstalk	GeneRIF Biological Term Annotations	1.0	null
NTERA-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.05322
SUPHD1	CCLE Cell Line Gene CNV Profiles	1.0	2.34644
A-375	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.895675
chemotherapeutic	GeneRIF Biological Term Annotations	1.0	null
hoxa7	GeneRIF Biological Term Annotations	1.0	null
SJRH30	CCLE Cell Line Gene CNV Profiles	-1.0	-2.37186
support	GeneRIF Biological Term Annotations	1.0	null
CAPAN1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.32266
inhibiting	GeneRIF Biological Term Annotations	1.0	null
beta	GeneRIF Biological Term Annotations	1.0	null
monocytes	GeneRIF Biological Term Annotations	1.0	null
colorectal	GeneRIF Biological Term Annotations	1.0	null
RUNX1-21571218-MEGAKARYOCYTES-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
review	GeneRIF Biological Term Annotations	1.0	null
migration	GeneRIF Biological Term Annotations	1.0	null
YMB-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.13132
AHR-22903824-MCF7-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
PC-3	COSMIC Cell Line Gene CNV Profiles	-1.0	-3.2703
hormone	GeneRIF Biological Term Annotations	1.0	null
tightly	GeneRIF Biological Term Annotations	1.0	null
DU4475	CCLE Cell Line Gene CNV Profiles	1.0	1.87979
CAL148	CCLE Cell Line Gene CNV Profiles	1.0	1.60703
H3K36me3_bronchial epithelial cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
nterminal	GeneRIF Biological Term Annotations	1.0	null
shift	GeneRIF Biological Term Annotations	1.0	null
agingrelated	GeneRIF Biological Term Annotations	1.0	null
ddx3x	GeneRIF Biological Term Annotations	1.0	null
remodeling	GeneRIF Biological Term Annotations	1.0	null
18478077-Table2a	GeneSigDB Published Gene Signatures	1.0	null
OCI-AML5	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.935291
killing	GeneRIF Biological Term Annotations	1.0	null
EZH2_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
signature	GeneRIF Biological Term Annotations	1.0	null
KMS-27	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.09564
depletion	GeneRIF Biological Term Annotations	1.0	null
H3K36me3_keratinocyte_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K36me3_bronchial epithelial cell_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
YY1	ENCODE Transcription Factor Targets	1.0	null
mir181ab	GeneRIF Biological Term Annotations	1.0	null
diagnostic	GeneRIF Biological Term Annotations	1.0	null
WSU-FSCCL	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.860915
repressing	GeneRIF Biological Term Annotations	1.0	null
PK-59	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.94454
contributes	GeneRIF Biological Term Annotations	1.0	null
GATA3_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
p27	GeneRIF Biological Term Annotations	1.0	null
TCF12_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
component	GeneRIF Biological Term Annotations	1.0	null
pancreatic	GeneRIF Biological Term Annotations	1.0	null
H3K9me3_HeLa-S3_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
hepatocellular	GeneRIF Biological Term Annotations	1.0	null
RUNX2-22187159-PCA-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
EZH2_myotube_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mirnas	GeneRIF Biological Term Annotations	1.0	null
MOR	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.29714
CAOV3	CCLE Cell Line Gene CNV Profiles	-1.0	-1.57658
inhibits	GeneRIF Biological Term Annotations	1.0	null
evaluating	GeneRIF Biological Term Annotations	1.0	null
radiation	GeneRIF Biological Term Annotations	1.0	null
prognosis	GeneRIF Biological Term Annotations	1.0	null
implying	GeneRIF Biological Term Annotations	1.0	null
treatment	GeneRIF Biological Term Annotations	1.0	null
promising	GeneRIF Biological Term Annotations	1.0	null
CAPAN-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.976833
actin	GeneRIF Biological Term Annotations	1.0	null
POLR2A_MCF-7_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
addiction	GeneRIF Biological Term Annotations	1.0	null
EP300_SK-N-SH_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CREBBP_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
believed	GeneRIF Biological Term Annotations	1.0	null
cocaine	GeneRIF Biological Term Annotations	1.0	null
states	GeneRIF Biological Term Annotations	1.0	null
POLR2AphosphoS5_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BT-474	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.03596
drug	GeneRIF Biological Term Annotations	1.0	null
posterior	GeneRIF Biological Term Annotations	1.0	null
KARPAS-422	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.09602
mir99b	GeneRIF Biological Term Annotations	1.0	null
binds	GeneRIF Biological Term Annotations	1.0	null
mir181b	GeneRIF Biological Term Annotations	1.0	null
JM1	CCLE Cell Line Gene CNV Profiles	1.0	1.64422
HS 746T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.10241
regulatory	GeneRIF Biological Term Annotations	1.0	null
leprosy	GeneRIF Biological Term Annotations	1.0	null
POLR2A_MCF 10A_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
neuroblastoma	GeneRIF Biological Term Annotations	1.0	null
RUNX1	ChEA Transcription Factor Targets	1.0	null
H3K36me3_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
miR-targeted genes in epithelium - TarBase(Homo sapiens)	WikiPathways Pathways 2014	1.0	null
UCSD-242L	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.45701
induces	GeneRIF Biological Term Annotations	1.0	null
EFO21	CCLE Cell Line Gene CNV Profiles	-1.0	-1.33133
artery	GeneRIF Biological Term Annotations	1.0	null
CAOV-4	COSMIC Cell Line Gene CNV Profiles	1.0	2.14116
H3K36me3_cardiac mesoderm_hg19_7	ENCODE Transcription Factor Binding Site Profiles	1.0	null
endometrial	GeneRIF Biological Term Annotations	1.0	null
cellular	GeneRIF Biological Term Annotations	1.0	null
SNU407	CCLE Cell Line Gene CNV Profiles	1.0	1.66911
AHR	ChEA Transcription Factor Targets	1.0	null
EZH2	ENCODE Transcription Factor Targets	1.0	null
20068076-Table3	GeneSigDB Published Gene Signatures	1.0	null
MDAMB453	CCLE Cell Line Gene CNV Profiles	1.0	2.18744
POLR2AphosphoS5_HL-60_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
restoration	GeneRIF Biological Term Annotations	1.0	null
urokinasetype	GeneRIF Biological Term Annotations	1.0	null
blood	GeneRIF Biological Term Annotations	1.0	null
mir125b	GeneRIF Biological Term Annotations	1.0	null
enhancing	GeneRIF Biological Term Annotations	1.0	null
invasion	GeneRIF Biological Term Annotations	1.0	null
NCIH650	CCLE Cell Line Gene CNV Profiles	-1.0	-1.66358
H4K20me1_osteoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
KYSE150	CCLE Cell Line Gene CNV Profiles	-1.0	-1.71133
sufficient	GeneRIF Biological Term Annotations	1.0	null
hprtdeficient	GeneRIF Biological Term Annotations	1.0	null
mrnatargeting	GeneRIF Biological Term Annotations	1.0	null
POLR2AphosphoS5_HL-60_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
20448109-Table2	GeneSigDB Published Gene Signatures	1.0	null
capsule	GeneRIF Biological Term Annotations	1.0	null
PBX3_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
interleukin	GeneRIF Biological Term Annotations	1.0	null
mir181a1	GeneRIF Biological Term Annotations	1.0	null
A172	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.827337
RAD21	ENCODE Transcription Factor Targets	1.0	null
cholesteroldependentdismantling	GeneRIF Biological Term Annotations	1.0	null
NCIH1385	CCLE Cell Line Gene CNV Profiles	1.0	1.92555
caaml	GeneRIF Biological Term Annotations	1.0	null
potentiating	GeneRIF Biological Term Annotations	1.0	null
GATA2	ENCODE Transcription Factor Targets	1.0	null
NCI-H460	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.29714
OPM-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.13132
probably	GeneRIF Biological Term Annotations	1.0	null
U-2932	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.08712
rap1b	GeneRIF Biological Term Annotations	1.0	null
COLO-704	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.84332
tongue	GeneRIF Biological Term Annotations	1.0	null
KURAMOCHI	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.11323
H3K27me3_Adult Liver	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
capable	GeneRIF Biological Term Annotations	1.0	null
than	GeneRIF Biological Term Annotations	1.0	null
ARNT-22903824-MCF7-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
pcaf	GeneRIF Biological Term Annotations	1.0	null
standard	GeneRIF Biological Term Annotations	1.0	null
A2780	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.859761
SK-N-AS	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00597
timp3	GeneRIF Biological Term Annotations	1.0	null
H4K20me1_myotube_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
colon	GeneRIF Biological Term Annotations	1.0	null
controlling	GeneRIF Biological Term Annotations	1.0	null
HCC515	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.80054
REST	ENCODE Transcription Factor Targets	1.0	null
NCI-H2170	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.895675
SK-MEL-28	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.04178
TP63-22573176-HFKS-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
NCI-H650	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.34449
mir181atwist1	GeneRIF Biological Term Annotations	1.0	null
H4K20me1_CD14-positive monocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
regulating	GeneRIF Biological Term Annotations	1.0	null
contribute	GeneRIF Biological Term Annotations	1.0	null
ME-180	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.962503
CTCF	ENCODE Transcription Factor Targets	1.0	null
including	GeneRIF Biological Term Annotations	1.0	null
KELLY	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.937538
provide	GeneRIF Biological Term Annotations	1.0	null
CAKI-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.41743
glioma	GeneRIF Biological Term Annotations	1.0	null
MDA-MB-453	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.48767
lipopolysaccharide	GeneRIF Biological Term Annotations	1.0	null
chronic	GeneRIF Biological Term Annotations	1.0	null
obese	GeneRIF Biological Term Annotations	1.0	null
regulator	GeneRIF Biological Term Annotations	1.0	null
naive	GeneRIF Biological Term Annotations	1.0	null
SNU324	CCLE Cell Line Gene CNV Profiles	1.0	1.35322
KMH2	CCLE Cell Line Gene CNV Profiles	1.0	2.1207
hladr	GeneRIF Biological Term Annotations	1.0	null
EP300_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
myeloid	GeneRIF Biological Term Annotations	1.0	null
biomarker	GeneRIF Biological Term Annotations	1.0	null
their	GeneRIF Biological Term Annotations	1.0	null
resulting	GeneRIF Biological Term Annotations	1.0	null
pbx3	GeneRIF Biological Term Annotations	1.0	null
mature	GeneRIF Biological Term Annotations	1.0	null
20028859-TableS2	GeneSigDB Published Gene Signatures	1.0	null
overexpression	GeneRIF Biological Term Annotations	1.0	null
YAPC	CCLE Cell Line Gene CNV Profiles	-1.0	-1.46061
kras	GeneRIF Biological Term Annotations	1.0	null
wif1	GeneRIF Biological Term Annotations	1.0	null
KMS-11	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.31618
HDQP1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.65406
G140	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.46483
YMB-1-E	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.13132
ZR751	CCLE Cell Line Gene CNV Profiles	1.0	1.9639
smokers	GeneRIF Biological Term Annotations	1.0	null
MXI1_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCIH526	CCLE Cell Line Gene CNV Profiles	-1.0	-1.81215
suppressed	GeneRIF Biological Term Annotations	1.0	null
20068076-SuppTable9b	GeneSigDB Published Gene Signatures	1.0	null
TCF12_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
distinguished	GeneRIF Biological Term Annotations	1.0	null
H3K36me3_fibroblast of lung_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
flux	GeneRIF Biological Term Annotations	1.0	null
T84	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.924227
H3K36me3_endothelial cell of umbilical vein_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SUM 1315M02	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.976833
CALU-6	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.923381
mir21	GeneRIF Biological Term Annotations	1.0	null
leads	GeneRIF Biological Term Annotations	1.0	null
serum	GeneRIF Biological Term Annotations	1.0	null
mir126	GeneRIF Biological Term Annotations	1.0	null
KYSE-150	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.59006
pathogenesis	GeneRIF Biological Term Annotations	1.0	null
NCI-H1651	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.71965
SAP30_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BT483	CCLE Cell Line Gene CNV Profiles	1.0	1.37395
G111	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.3978
GATA3	ENCODE Transcription Factor Targets	1.0	null
direct	GeneRIF Biological Term Annotations	1.0	null
NCIH1651	CCLE Cell Line Gene CNV Profiles	1.0	1.67495
linked	GeneRIF Biological Term Annotations	1.0	null
CJM	CCLE Cell Line Gene CNV Profiles	-1.0	-1.42105
translation	GeneRIF Biological Term Annotations	1.0	null
dopaminergic	GeneRIF Biological Term Annotations	1.0	null
noncoding	GeneRIF Biological Term Annotations	1.0	null
members	GeneRIF Biological Term Annotations	1.0	null
resistance	GeneRIF Biological Term Annotations	1.0	null
JJ012	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.853214
apoptosis	GeneRIF Biological Term Annotations	1.0	null
bufalin	GeneRIF Biological Term Annotations	1.0	null
20448109-Table1b	GeneSigDB Published Gene Signatures	1.0	null
TALL1	CCLE Cell Line Gene CNV Profiles	-1.0	-3.19842
mononuclear	GeneRIF Biological Term Annotations	1.0	null
G130	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.895675
tmz	GeneRIF Biological Term Annotations	1.0	null
FOXL1	JASPAR Predicted Transcription Factor Targets	1.0	null
NCI-H2804	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.2215
NCIH1299	CCLE Cell Line Gene CNV Profiles	-1.0	-1.62779
thus	GeneRIF Biological Term Annotations	1.0	null
bcl2	GeneRIF Biological Term Annotations	1.0	null
mir222	GeneRIF Biological Term Annotations	1.0	null
exert	GeneRIF Biological Term Annotations	1.0	null
nonfavorable	GeneRIF Biological Term Annotations	1.0	null
cisplatinchemoresistance	GeneRIF Biological Term Annotations	1.0	null
RAD21_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
abnormal	GeneRIF Biological Term Annotations	1.0	null
metastasis	GeneRIF Biological Term Annotations	1.0	null
increases	GeneRIF Biological Term Annotations	1.0	null
hoxa9	GeneRIF Biological Term Annotations	1.0	null
influence	GeneRIF Biological Term Annotations	1.0	null
menstrual	GeneRIF Biological Term Annotations	1.0	null
MOLP-8	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.935291
HCC1599	CCLE Cell Line Gene CNV Profiles	1.0	1.5927
SAP30	ENCODE Transcription Factor Targets	1.0	null
POU3F2-20337985-501MEL-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
GATA3_SH-SY5Y_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
identification	GeneRIF Biological Term Annotations	1.0	null
PC-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.31926
COLO 680N	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.01673
regulated	GeneRIF Biological Term Annotations	1.0	null
PK59	CCLE Cell Line Gene CNV Profiles	-1.0	-1.9436
POLR2AphosphoS2_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
activator	GeneRIF Biological Term Annotations	1.0	null
hormonethrb	GeneRIF Biological Term Annotations	1.0	null
TCF12	ENCODE Transcription Factor Targets	1.0	null
chk2	GeneRIF Biological Term Annotations	1.0	null
therapeutic	GeneRIF Biological Term Annotations	1.0	null
acute	GeneRIF Biological Term Annotations	1.0	null
virus	GeneRIF Biological Term Annotations	1.0	null
hoxa11	GeneRIF Biological Term Annotations	1.0	null
osteosarcoma	GeneRIF Biological Term Annotations	1.0	null
SW1271	CCLE Cell Line Gene CNV Profiles	-1.0	-1.75542
leukaemia	GeneRIF Biological Term Annotations	1.0	null
map2k4	GeneRIF Biological Term Annotations	1.0	null
HT1197	CCLE Cell Line Gene CNV Profiles	-1.0	-2.0017
HUH-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.12264
RERF-LC-KJ	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.1235
putative	GeneRIF Biological Term Annotations	1.0	null
mir181abcd	GeneRIF Biological Term Annotations	1.0	null
EP300	ENCODE Transcription Factor Targets	1.0	null
isoform	GeneRIF Biological Term Annotations	1.0	null
NCI-H187	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.39684
SKLMS1	CCLE Cell Line Gene CNV Profiles	-1.0	-2.12197
FOXA1	ENCODE Transcription Factor Targets	1.0	null
REST_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ilf3	GeneRIF Biological Term Annotations	1.0	null
SUP-B15	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.32633
769-P	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.14127
SW 1116	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.923381
HCC1599	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.17433
calcium	GeneRIF Biological Term Annotations	1.0	null
induced	GeneRIF Biological Term Annotations	1.0	null
cd4	GeneRIF Biological Term Annotations	1.0	null
CALU6	CCLE Cell Line Gene CNV Profiles	-1.0	-1.35371
lowrisk	GeneRIF Biological Term Annotations	1.0	null
GATA2_SH-SY5Y_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCIH508	CCLE Cell Line Gene CNV Profiles	-1.0	-1.69802
differentiation	GeneRIF Biological Term Annotations	1.0	null
valuable	GeneRIF Biological Term Annotations	1.0	null
H3K27ac_CD14-positive monocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
while	GeneRIF Biological Term Annotations	1.0	null
HCC78	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.851396
cordblood	GeneRIF Biological Term Annotations	1.0	null
microrna	GeneRIF Biological Term Annotations	1.0	null
truncated	GeneRIF Biological Term Annotations	1.0	null
G44	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.3384
rna	GeneRIF Biological Term Annotations	1.0	null
hepatoma	GeneRIF Biological Term Annotations	1.0	null
mds	GeneRIF Biological Term Annotations	1.0	null
range	GeneRIF Biological Term Annotations	1.0	null
celladhesion	GeneRIF Biological Term Annotations	1.0	null
H3K27me3_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
promotes	GeneRIF Biological Term Annotations	1.0	null
ITK_defectivemutant_125_GSE28200	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	1.0	1.38346
H3K9me1_keratinocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
KMS-12-PE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.25941
COLO 679	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.01399
metastatic	GeneRIF Biological Term Annotations	1.0	null
differentially	GeneRIF Biological Term Annotations	1.0	null
POLR2AphosphoS5_neural cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
wide	GeneRIF Biological Term Annotations	1.0	null
pgrmc1	GeneRIF Biological Term Annotations	1.0	null
mir181	GeneRIF Biological Term Annotations	1.0	null
thrb	GeneRIF Biological Term Annotations	1.0	null
demonstrates	GeneRIF Biological Term Annotations	1.0	null
WM-115	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00597
Hematopoietic Stem Cell Differentiation(Homo sapiens)	WikiPathways Pathways 2014	1.0	null
subtypes	GeneRIF Biological Term Annotations	1.0	null
CTCF_mammary epithelial cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
C32	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.64862
directly	GeneRIF Biological Term Annotations	1.0	null
small	GeneRIF Biological Term Annotations	1.0	null
ZR-75-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.12994
CTCF_T-cell acute lymphoblastic leukemia_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
family	GeneRIF Biological Term Annotations	1.0	null
hepatitis	GeneRIF Biological Term Annotations	1.0	null
TP63	ChEA Transcription Factor Targets	1.0	null
susceptibility	GeneRIF Biological Term Annotations	1.0	null
demonstrated	GeneRIF Biological Term Annotations	1.0	null
RUNX2	ChEA Transcription Factor Targets	1.0	null
SPI1_HL-60_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
indicating	GeneRIF Biological Term Annotations	1.0	null
lckzap70cblb	GeneRIF Biological Term Annotations	1.0	null
lung	GeneRIF Biological Term Annotations	1.0	null
acts	GeneRIF Biological Term Annotations	1.0	null
POU3F2	ChEA Transcription Factor Targets	1.0	null
YY1_SK-N-SH_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TP63-23658742-EP156T-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
TC32	CCLE Cell Line Gene CNV Profiles	1.0	1.54609
SOX10	MotifMap Predicted Transcription Factor Targets	1.0	null
upregulates	GeneRIF Biological Term Annotations	1.0	null
coronary	GeneRIF Biological Term Annotations	1.0	null
osteoarthritis	GeneRIF Biological Term Annotations	1.0	null
H3K36me3_U2OS_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PBX3	ENCODE Transcription Factor Targets	1.0	null
mir146a	GeneRIF Biological Term Annotations	1.0	null
promoter	GeneRIF Biological Term Annotations	1.0	null
cyp19a1	GeneRIF Biological Term Annotations	1.0	null
substrate	GeneRIF Biological Term Annotations	1.0	null
RERF-LC-OK	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.26295
U87MG	CCLE Cell Line Gene CNV Profiles	-1.0	-1.51062
RBBP5_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
normal	GeneRIF Biological Term Annotations	1.0	null
into	GeneRIF Biological Term Annotations	1.0	null
opacification	GeneRIF Biological Term Annotations	1.0	null
gastric	GeneRIF Biological Term Annotations	1.0	null
obstructive	GeneRIF Biological Term Annotations	1.0	null
HUPT4	CCLE Cell Line Gene CNV Profiles	-1.0	-1.94319
FOXC1	JASPAR Predicted Transcription Factor Targets	1.0	null
identify	GeneRIF Biological Term Annotations	1.0	null
MXI1	ENCODE Transcription Factor Targets	1.0	null
suppressor	GeneRIF Biological Term Annotations	1.0	null
embryonic	GeneRIF Biological Term Annotations	1.0	null
poor	GeneRIF Biological Term Annotations	1.0	null
CAL-148	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.860915
cycle	GeneRIF Biological Term Annotations	1.0	null
functions	GeneRIF Biological Term Annotations	1.0	null
agent	GeneRIF Biological Term Annotations	1.0	null
mir193a	GeneRIF Biological Term Annotations	1.0	null
RPMI-7951	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.572
POLR2A_endothelial cell of umbilical vein_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K79me2_A549_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
GAMG	CCLE Cell Line Gene CNV Profiles	-1.0	-1.37443
endothelialmirna	GeneRIF Biological Term Annotations	1.0	null
aml	GeneRIF Biological Term Annotations	1.0	null
syndrome	GeneRIF Biological Term Annotations	1.0	null
sphere	GeneRIF Biological Term Annotations	1.0	null
leukemia	GeneRIF Biological Term Annotations	1.0	null
oncogenes	GeneRIF Biological Term Annotations	1.0	null