association	dataset	threshold value	standardized value
BCL11A	ENCODE Transcription Factor Targets	1.0	null
H3K27ac_mammary epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
NFATC1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Thrombocytopenia	CTD Gene-Disease Associations	1.0	1.04126
RBBP5_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAFF_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
19895320-Table1	GeneSigDB Published Gene Signatures	1.0	null
Carcinoma, Non-Small-Cell Lung	HuGE Navigator Gene-Phenotype Associations	1.0	null
naturally	GeneRIF Biological Term Annotations	1.0	null
REC1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.38692
NCIH1793	CCLE Cell Line Gene CNV Profiles	-1.0	-1.45755
MHHES1	CCLE Cell Line Gene CNV Profiles	1.0	1.37347
H3K36me3_Muscle Satellite Cultured Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
H3K36me3_fibroblast of dermis_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EZH2_skeletal muscle myoblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
core	GeneRIF Biological Term Annotations	1.0	null
NFIC	ENCODE Transcription Factor Targets	1.0	null
NURR1	MotifMap Predicted Transcription Factor Targets	1.0	null
EBF1_GM12878_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
OVMANA	CCLE Cell Line Gene CNV Profiles	1.0	1.72974
mir101	GeneRIF Biological Term Annotations	1.0	null
KMS-28PE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.48133
CUX1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
validated	GeneRIF Biological Term Annotations	1.0	null
cancerrelated	GeneRIF Biological Term Annotations	1.0	null
OCIMY5	CCLE Cell Line Gene CNV Profiles	-1.0	-1.53744
EVSA-T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.896134
altered	GeneRIF Biological Term Annotations	1.0	null
H3K4me1_fibroblast of dermis_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CAL-148	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.8525
mir1281	GeneRIF Biological Term Annotations	1.0	null
HEP G2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.38816
STAT5A_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KYSE-140	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.960821
EP300	ENCODE Transcription Factor Targets	1.0	null
NCI-H2009	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.23433
aggressiveness	GeneRIF Biological Term Annotations	1.0	null
MEF2A	ENCODE Transcription Factor Targets	1.0	null
MTA3	ENCODE Transcription Factor Targets	1.0	null
STAT1	ENCODE Transcription Factor Targets	1.0	null
microrna128	GeneRIF Biological Term Annotations	1.0	null
H3K36me3_liver_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Drug-Related Side Effects and Adverse Reactions	CTD Gene-Disease Associations	1.0	1.11606
BHLHE40	ENCODE Transcription Factor Targets	1.0	null
MAFF_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HCC-15	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.995764
aberrant	GeneRIF Biological Term Annotations	1.0	null
KARPAS-620	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.00225
MAFK_IMR-90_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_endothelial cell of umbilical vein_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
NCI-H2023	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.41311
inverse	GeneRIF Biological Term Annotations	1.0	null
many	GeneRIF Biological Term Annotations	1.0	null
SK-MEL-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.90833
YY1	MotifMap Predicted Transcription Factor Targets	1.0	null
prostate	GeneRIF Biological Term Annotations	1.0	null
SBC5	CCLE Cell Line Gene CNV Profiles	1.0	1.83361
BL70	CCLE Cell Line Gene CNV Profiles	-1.0	-1.63471
molecular	GeneRIF Biological Term Annotations	1.0	null
SW 1417	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.43043
region	GeneRIF Biological Term Annotations	1.0	null
H3K27ac_Panc1_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
IRF4_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
p53	GeneRIF Biological Term Annotations	1.0	null
neurons	GeneRIF Biological Term Annotations	1.0	null
BCL3_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Pancreatic Neoplasms	CTD Gene-Disease Associations	1.0	1.10527
H4K20me1_astrocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
STAT3_MCF 10A_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EFM-192C	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.918273
MAFK_HepG2_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mir128a	GeneRIF Biological Term Annotations	1.0	null
NCI-H2452	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.909438
TCF7L2	ENCODE Transcription Factor Targets	1.0	null
while	GeneRIF Biological Term Annotations	1.0	null
secreted	GeneRIF Biological Term Annotations	1.0	null
SMARCA4	ChEA Transcription Factor Targets	1.0	null
H3K9ac_CD14-positive monocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
rna	GeneRIF Biological Term Annotations	1.0	null
KELLY	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.7955
affect	GeneRIF Biological Term Annotations	1.0	null
FOSL2	ENCODE Transcription Factor Targets	1.0	null
H3K4me1_Pancreatic Islets	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
KMS-11	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.18013
degradation	GeneRIF Biological Term Annotations	1.0	null
H3K4me1_Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
EBC-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	3.19301
EPLC-272H	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.17181
HT	CCLE Cell Line Gene CNV Profiles	-1.0	-2.23545
there	GeneRIF Biological Term Annotations	1.0	null
WHSC1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
level	GeneRIF Biological Term Annotations	1.0	null
SPI1	ENCODE Transcription Factor Targets	1.0	null
FOS_MCF 10A_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KYSE-270	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.43043
EBF1	ENCODE Transcription Factor Targets	1.0	null
POLR2A_endothelial cell of umbilical vein_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
cortical	GeneRIF Biological Term Annotations	1.0	null
SAP30_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BEN	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.50217
POLR2AphosphoS5_SK-N-MC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
22RV1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.98307
hiv1	GeneRIF Biological Term Annotations	1.0	null
H3K4me2_astrocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
VMRC-LCD	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.23433
H3K4me1_astrocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
BEN	CCLE Cell Line Gene CNV Profiles	1.0	1.75426
TCF12_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCIH1838	CCLE Cell Line Gene CNV Profiles	-1.0	-1.77231
CX-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.13612
H3K27ac_astrocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
MKN7	CCLE Cell Line Gene CNV Profiles	-1.0	-1.33178
EP300_GM12878_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
monocytes	GeneRIF Biological Term Annotations	1.0	null
NCI-H920	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.97663
H3K4me1_Brain Hippocampus Middle	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
BATF	ENCODE Transcription Factor Targets	1.0	null
micrornas	GeneRIF Biological Term Annotations	1.0	null
accounts	GeneRIF Biological Term Annotations	1.0	null
processes	GeneRIF Biological Term Annotations	1.0	null
20406893-Table1b	GeneSigDB Published Gene Signatures	1.0	null
MYC_OE_GDS4763_332_human_MCF10A - immortalized breast epithelial cell line	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
H3K36me3_thymus_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HT	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.60966
mir7	GeneRIF Biological Term Annotations	1.0	null
mirnas	GeneRIF Biological Term Annotations	1.0	null
glioblastoma	GeneRIF Biological Term Annotations	1.0	null
537 MEL	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.48133
ab142	GeneRIF Biological Term Annotations	1.0	null
detected	GeneRIF Biological Term Annotations	1.0	null
GATA2	ChEA Transcription Factor Targets	1.0	null
colorectal	GeneRIF Biological Term Annotations	1.0	null
central	GeneRIF Biological Term Annotations	1.0	null
IKZF1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
G142	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.06761
MAFK_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MDA-MB-436	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.71446
OKAJIMA	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.918273
H3K36me3_CD4+ CD25int CD127+ Tmem Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
MEF2C_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TCF12	ENCODE Transcription Factor Targets	1.0	null
former	GeneRIF Biological Term Annotations	1.0	null
H3K36me3_heart_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MHH-ES-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.47285
HCC1263	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.995764
STAT3	ENCODE Transcription Factor Targets	1.0	null
NCI-H2106	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.32449
FOSL2_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K36me3_CH12.LX_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
F36P	CCLE Cell Line Gene CNV Profiles	-1.0	-1.80511
DMS53	CCLE Cell Line Gene CNV Profiles	-1.0	-2.5986
modulating	GeneRIF Biological Term Annotations	1.0	null
IRF4_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
somatomammotrophic	GeneRIF Biological Term Annotations	1.0	null
been	GeneRIF Biological Term Annotations	1.0	null
647V	CCLE Cell Line Gene CNV Profiles	-1.0	-3.13367
SNU119	CCLE Cell Line Gene CNV Profiles	1.0	1.86686
M059K	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.860987
LU65	CCLE Cell Line Gene CNV Profiles	-1.0	-1.84904
RH41	CCLE Cell Line Gene CNV Profiles	1.0	2.80436
RT11284	CCLE Cell Line Gene CNV Profiles	-1.0	-1.50214
BT-20	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.884894
H3K4me2_endothelial cell of umbilical vein_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
FOS_MCF 10A_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAFF	ENCODE Transcription Factor Targets	1.0	null
proliferation	GeneRIF Biological Term Annotations	1.0	null
Neoplasm Metastasis	CTD Gene-Disease Associations	1.0	1.2208
H3K27ac_GM12878_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
POLR2A	ENCODE Transcription Factor Targets	1.0	null
PML_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PK-8	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.55689
hormoneresponsive	GeneRIF Biological Term Annotations	1.0	null
CHD1_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
normal phenotype	MPO Gene-Phenotype Associations	1.0	null
SRF_GM12878_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
including	GeneRIF Biological Term Annotations	1.0	null
KMS26	CCLE Cell Line Gene CNV Profiles	-1.0	-1.46626
NFATC1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PAX5_GM12878_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MFM-223	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.28228
H3K4me1_Neurosphere Cultured Cells Cortex Derived	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
KATOIII	CCLE Cell Line Gene CNV Profiles	-1.0	-1.51123
NCIH211	CCLE Cell Line Gene CNV Profiles	-1.0	-1.38847
transcriptiondependent	GeneRIF Biological Term Annotations	1.0	null
imbalanced	GeneRIF Biological Term Annotations	1.0	null
EP300_GM12878_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EP300_HepG2_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
LP1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.33358
partially	GeneRIF Biological Term Annotations	1.0	null
networks	GeneRIF Biological Term Annotations	1.0	null
KMS-26	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.35816
effect	GeneRIF Biological Term Annotations	1.0	null
Lung Neoplasms	HuGE Navigator Gene-Phenotype Associations	1.0	null
IKZF1	ENCODE Transcription Factor Targets	1.0	null
deregulates	GeneRIF Biological Term Annotations	1.0	null
KMS28BM	CCLE Cell Line Gene CNV Profiles	-1.0	-1.70023
BCLAF1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCI-H1915	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.09188
FOS_MCF 10A_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KMS-28BM	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.45563
PANC 02.03	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.909438
RT-112	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.79728
20485376-TableS3	GeneSigDB Published Gene Signatures	1.0	null
SP1	ENCODE Transcription Factor Targets	1.0	null
FOS_MCF 10A_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
component	GeneRIF Biological Term Annotations	1.0	null
DMS 454	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.91896
mir128	GeneRIF Biological Term Annotations	1.0	null
STAT1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
wee1	GeneRIF Biological Term Annotations	1.0	null
EZH2_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAFK_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
no abnormal phenotype detected	MPO Gene-Phenotype Associations	1.0	null
independent	GeneRIF Biological Term Annotations	1.0	null
resulted	GeneRIF Biological Term Annotations	1.0	null
HBL-100	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.13612
BCLAF1	ENCODE Transcription Factor Targets	1.0	null
TT	CCLE Cell Line Gene CNV Profiles	1.0	2.14904
Weight Loss	CTD Gene-Disease Associations	1.0	1.04611
H3K36me3_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
FOXM1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
COLO 857	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.31061
HCA-7	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.70148
survival	GeneRIF Biological Term Annotations	1.0	null
COLO 829	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.00161
H3K27ac_keratinocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
BCLAF1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EZH2	ENCODE Transcription Factor Targets	1.0	null
REST	ENCODE Transcription Factor Targets	1.0	null
H3K79me1_IMR90	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
developmental	GeneRIF Biological Term Annotations	1.0	null
KYSE270	CCLE Cell Line Gene CNV Profiles	1.0	1.66032
FOS	ENCODE Transcription Factor Targets	1.0	null
targeting	GeneRIF Biological Term Annotations	1.0	null
pathogenesis	GeneRIF Biological Term Annotations	1.0	null
BT-549	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.21783
mammalian phenotype	MPO Gene-Phenotype Associations	1.0	null
cycle	GeneRIF Biological Term Annotations	1.0	null
NCI-H187	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.05581
EP300_SK-N-SH_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
20485376-TableS4	GeneSigDB Published Gene Signatures	1.0	null
ETS2	MotifMap Predicted Transcription Factor Targets	1.0	null
RT112	CCLE Cell Line Gene CNV Profiles	-1.0	-2.23581
NCIH2023	CCLE Cell Line Gene CNV Profiles	1.0	1.62116
salmonella	GeneRIF Biological Term Annotations	1.0	null
TCF7L2_Panc1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
invasion	GeneRIF Biological Term Annotations	1.0	null
H3K36me3_Stomach Mucosa	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
20448109-Table2	GeneSigDB Published Gene Signatures	1.0	null
SMARCA4-23332759-OLIGODENDROCYTES-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
MEF2C	ENCODE Transcription Factor Targets	1.0	null
possible	GeneRIF Biological Term Annotations	1.0	null
NFIC_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_Neurosphere Cultured Cells Ganglionic Eminence Derived	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
TCC-PAN2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.17181
H3K36me3_splenic B cell_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCI-H146	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.51764
EFM-192B	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.05581
H3K4me2_osteoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me1_Brain Inferior Temporal Lobe	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
REST_HL-60_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HDAC1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
tumors	GeneRIF Biological Term Annotations	1.0	null
marker	GeneRIF Biological Term Annotations	1.0	null
ATF2_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TBL1XR1	ENCODE Transcription Factor Targets	1.0	null
SNU-182	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.995764
STAT5A	ENCODE Transcription Factor Targets	1.0	null
MTA3_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EP300_GM12878_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
Glioblastoma	CTD Gene-Disease Associations	1.0	1.17101
FOXM1	ENCODE Transcription Factor Targets	1.0	null
other	GeneRIF Biological Term Annotations	1.0	null
H3K4me1_keratinocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
KATO III	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.42134
no abnormal phenotype detected	MGI Mouse Phenotype Associations 2023	1.0	null
JL1	CCLE Cell Line Gene CNV Profiles	1.0	1.51345
STAT3_MCF 10A_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
correlation	GeneRIF Biological Term Annotations	1.0	null
SRF	ENCODE Transcription Factor Targets	1.0	null
MAFA	MotifMap Predicted Transcription Factor Targets	1.0	null
C3A	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.15988
exerts	GeneRIF Biological Term Annotations	1.0	null
upf1	GeneRIF Biological Term Annotations	1.0	null
Breast Neoplasms	HuGE Navigator Gene-Phenotype Associations	1.0	null
effectors	GeneRIF Biological Term Annotations	1.0	null
QGP-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00904
H3K4me3_GM12878_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
FOXM1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EB2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.13368
breast cancer	GAD Gene-Disease Associations	1.0	null
REST_H1-hESC_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CAL 54	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.973441
H3K4me2_GM12878_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
NCI-H1838	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.8638
SAP30	ENCODE Transcription Factor Targets	1.0	null
pumabak	GeneRIF Biological Term Annotations	1.0	null
SW 480	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.83787
EZH2_myotube_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_megakaryocyte_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
CHD1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
modulate	GeneRIF Biological Term Annotations	1.0	null
differentiation	GeneRIF Biological Term Annotations	1.0	null
inhibition	GeneRIF Biological Term Annotations	1.0	null
EZH2_keratinocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
induce	GeneRIF Biological Term Annotations	1.0	null
ATF3-23680149-GBM1-GSC-HUMAN	ChEA Transcription Factor Binding Site Profiles	1.0	null
EBC1	CCLE Cell Line Gene CNV Profiles	1.0	2.7126
ZNF143_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
A-498	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.909438
ASPC-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.973441
RBBP5	ENCODE Transcription Factor Targets	1.0	null
H3K4me1_Brain Mid Frontal Lobe	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
REST_H1-hESC_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
types	GeneRIF Biological Term Annotations	1.0	null
NCIH2106	CCLE Cell Line Gene CNV Profiles	-1.0	-1.35275
SK-MES-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.853762
H3K4me1_Bone Marrow Derived Mesenchymal Stem Cell Cultured Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
JMSU1	CCLE Cell Line Gene CNV Profiles	1.0	1.60172
regulator	GeneRIF Biological Term Annotations	1.0	null
correlates	GeneRIF Biological Term Annotations	1.0	null
MKN-74	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.52181
DMS 53	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.72338
OVCA 432	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.853762
pituitary	GeneRIF Biological Term Annotations	1.0	null
mir2213p	GeneRIF Biological Term Annotations	1.0	null
induces	GeneRIF Biological Term Annotations	1.0	null
JHOC5	CCLE Cell Line Gene CNV Profiles	1.0	1.97743
H3K36me3_small intestine_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
latter	GeneRIF Biological Term Annotations	1.0	null
NCIH2227	CCLE Cell Line Gene CNV Profiles	1.0	1.96999
BCL11A_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RB1_KD_GSE50532_591_human_OSTEOBLASTS	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
GATA2-20887958-HPC-7-MOUSE	ChEA Transcription Factor Binding Site Profiles	1.0	null
breast	GeneRIF Biological Term Annotations	1.0	null
COLO 853	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.23554
decay	GeneRIF Biological Term Annotations	1.0	null
NCI-H1792	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.24378
low	GeneRIF Biological Term Annotations	1.0	null
H3K9me1_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
ptenakt	GeneRIF Biological Term Annotations	1.0	null
HEC-1-A	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.52462
SP1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
manner	GeneRIF Biological Term Annotations	1.0	null
inhibits	GeneRIF Biological Term Annotations	1.0	null
H3K36me3_kidney_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SKMEL2	CCLE Cell Line Gene CNV Profiles	-1.0	-1.89603
tat	GeneRIF Biological Term Annotations	1.0	null
represses	GeneRIF Biological Term Annotations	1.0	null
H3K4me1_osteoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
events	GeneRIF Biological Term Annotations	1.0	null
RUNX3_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BATF_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_skeletal muscle myoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
NFE2_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
PAX5	ENCODE Transcription Factor Targets	1.0	null
downregulation	GeneRIF Biological Term Annotations	1.0	null
LXFL529	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.70599
H3K36me3_CD8 Memory Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
Anorexia	CTD Gene-Disease Associations	1.0	1.08975
TBL1XR1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
REC-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.38697
G402	CCLE Cell Line Gene CNV Profiles	1.0	1.50442
lines	GeneRIF Biological Term Annotations	1.0	null
constitute	GeneRIF Biological Term Annotations	1.0	null
PAX5_GM12878_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TCF3_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
demethylation	GeneRIF Biological Term Annotations	1.0	null
reduced	GeneRIF Biological Term Annotations	1.0	null
DANG	CCLE Cell Line Gene CNV Profiles	1.0	1.33753
ovarian	GeneRIF Biological Term Annotations	1.0	null
MKN-7	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.09645
Necrosis	CTD Gene-Disease Associations	1.0	1.04868
BCL11A_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAFK	ENCODE Transcription Factor Targets	1.0	null
mln51	GeneRIF Biological Term Annotations	1.0	null
DMS 79	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.909438
TCF3	ENCODE Transcription Factor Targets	1.0	null
NFIC_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BCL3	ENCODE Transcription Factor Targets	1.0	null
potentially	GeneRIF Biological Term Annotations	1.0	null
KELLY	CCLE Cell Line Gene CNV Profiles	-1.0	-1.62792
POU2F2_GM12891_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EW8	CCLE Cell Line Gene CNV Profiles	1.0	2.17161
regulators	GeneRIF Biological Term Annotations	1.0	null
BHLHE40_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
clarify	GeneRIF Biological Term Annotations	1.0	null
MYC_OE_GSE43730_684_human_MCF10A cells	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	1.0	null
HUH-7	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.973441
SHP77	CCLE Cell Line Gene CNV Profiles	-1.0	-1.44333
promoter	GeneRIF Biological Term Annotations	1.0	null
PML	ENCODE Transcription Factor Targets	1.0	null
STAT4	MotifMap Predicted Transcription Factor Targets	1.0	null
EBF1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZNF143	ENCODE Transcription Factor Targets	1.0	null
MEF2A_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
underexpressed	GeneRIF Biological Term Annotations	1.0	null
G140	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.884894
OVMANA	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.33693
NCIH647	CCLE Cell Line Gene CNV Profiles	1.0	1.66905
negative	GeneRIF Biological Term Annotations	1.0	null
biological	GeneRIF Biological Term Annotations	1.0	null
L540	CCLE Cell Line Gene CNV Profiles	1.0	1.36517
ATF3	ChEA Transcription Factor Targets	1.0	null
JL-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.92698
H3K4me1_CD14-positive monocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
NCI-H1793	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.2899
SNU-449	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.973441
HDAC1	ENCODE Transcription Factor Targets	1.0	null
H3K4me1_HeLa-S3_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
MEF2A_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
WHSC1	ENCODE Transcription Factor Targets	1.0	null
H3K36me3_G1E_mm9_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
astrocytomas	GeneRIF Biological Term Annotations	1.0	null
NFATC1	ENCODE Transcription Factor Targets	1.0	null
such	GeneRIF Biological Term Annotations	1.0	null
H3K27ac_osteoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
HO-1-U-1	COSMIC Cell Line Gene CNV Profiles	1.0	4.51153
H3K36me3_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MOLP-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.17181
productionclearance	GeneRIF Biological Term Annotations	1.0	null
SK-BR-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.965199
POU2F2	ENCODE Transcription Factor Targets	1.0	null
neuroblastoma	GeneRIF Biological Term Annotations	1.0	null
H3K36me3_cardiac mesoderm_hg19_7	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CUX1	ENCODE Transcription Factor Targets	1.0	null
Neuro D	MotifMap Predicted Transcription Factor Targets	1.0	null
mir26b	GeneRIF Biological Term Annotations	1.0	null
adhesion	GeneRIF Biological Term Annotations	1.0	null
TK	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.05581
H3K36me3_cardiac mesoderm_hg19_6	ENCODE Transcription Factor Binding Site Profiles	1.0	null
tgfbeta	GeneRIF Biological Term Annotations	1.0	null
G-402	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.80885
mir1243p	GeneRIF Biological Term Annotations	1.0	null
H3K4me1_Adipose Derived Mesenchymal Stem Cell Cultured Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
Hematopoietic Stem Cell Differentiation(Homo sapiens)	WikiPathways Pathways 2014	1.0	null
T-47D	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.853762
nonsensemediated	GeneRIF Biological Term Annotations	1.0	null
19895320-Table3	GeneSigDB Published Gene Signatures	1.0	null
CAL148	CCLE Cell Line Gene CNV Profiles	-1.0	-2.08674
KPL-4	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.10198
overexpression	GeneRIF Biological Term Annotations	1.0	null
H3K36me3_spleen_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCI-H2804	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.995764
REST_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_Panc1_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H4K20me1_myotube_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
exonjunction	GeneRIF Biological Term Annotations	1.0	null
NCIH1915	CCLE Cell Line Gene CNV Profiles	1.0	1.46884
BATF_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
IRF4	ENCODE Transcription Factor Targets	1.0	null
JJN-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.853762
H3K4me1_heart_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
PANC 08.13	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.884894
SNU-719	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.10374
Prenatal Injuries	CTD Gene-Disease Associations	1.0	1.17464
snap25	GeneRIF Biological Term Annotations	1.0	null
apoptosis	GeneRIF Biological Term Annotations	1.0	null
NCI-H1573	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.10363
H3K4me1_CD4 Naive Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
RUNX3	ENCODE Transcription Factor Targets	1.0	null
NCIH838	CCLE Cell Line Gene CNV Profiles	1.0	1.32961
SPI1_GM12891_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
OUMS-23	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.8609
KASUMI-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.04136
H3K4me1_CD8 Naive Primary Cells	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
KMM-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.09645
U-2932	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.70071
H3K36me3_brain_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCI-H1092	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.960821
TOV-112D	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.973441
MDA-MB-157	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.13521
contribute	GeneRIF Biological Term Annotations	1.0	null
mechanisms	GeneRIF Biological Term Annotations	1.0	null
MDA-MB-330	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.960821
Fatty Liver	CTD Gene-Disease Associations	1.0	1.03419
ATF2_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
restores	GeneRIF Biological Term Annotations	1.0	null
axis	GeneRIF Biological Term Annotations	1.0	null
H3K36me3_testis_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MTA3_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
induced	GeneRIF Biological Term Annotations	1.0	null
NUGC-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.973441
into	GeneRIF Biological Term Annotations	1.0	null
localization	GeneRIF Biological Term Annotations	1.0	null
changes	GeneRIF Biological Term Annotations	1.0	null
MHH-PREB-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.04136
improves	GeneRIF Biological Term Annotations	1.0	null
helicase	GeneRIF Biological Term Annotations	1.0	null
suggesting	GeneRIF Biological Term Annotations	1.0	null
NFE2	ENCODE Transcription Factor Targets	1.0	null
C3A	CCLE Cell Line Gene CNV Profiles	1.0	1.35258
Fibrosis	CTD Gene-Disease Associations	1.0	1.08372
glioma	GeneRIF Biological Term Annotations	1.0	null
HEC1A	CCLE Cell Line Gene CNV Profiles	1.0	1.37823
ATF2	ENCODE Transcription Factor Targets	1.0	null
control	GeneRIF Biological Term Annotations	1.0	null
NCI-H2198	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.995764
CHD1	ENCODE Transcription Factor Targets	1.0	null
SW900	CCLE Cell Line Gene CNV Profiles	1.0	1.48209
EBF1_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
STAT5A_GM12878_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_GM12878_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
ezh2	GeneRIF Biological Term Annotations	1.0	null
transfection	GeneRIF Biological Term Annotations	1.0	null
RUNX3_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
proapoptotic	GeneRIF Biological Term Annotations	1.0	null
LBP-1	MotifMap Predicted Transcription Factor Targets	1.0	null