association	dataset	threshold value	standardized value
regulators	GeneRIF Biological Term Annotations	1.0	null
ETS1_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K36me3_MEL cell line_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K79me2_keratinocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
TCF7L2_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
JUN_K562_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
leading	GeneRIF Biological Term Annotations	1.0	null
sox5	GeneRIF Biological Term Annotations	1.0	null
coordinately	GeneRIF Biological Term Annotations	1.0	null
eGFP-JUNB_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
20068076-SuppTable9a	GeneSigDB Published Gene Signatures	1.0	null
TEAD4_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
JUN	ENCODE Transcription Factor Targets	1.0	null
modulate	GeneRIF Biological Term Annotations	1.0	null
H3K36me3_liver_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
transcriptionally	GeneRIF Biological Term Annotations	1.0	null
tsp1	GeneRIF Biological Term Annotations	1.0	null
myelomas	GeneRIF Biological Term Annotations	1.0	null
cellular	GeneRIF Biological Term Annotations	1.0	null
SUM 149PT	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.4489
GTF2F1	ENCODE Transcription Factor Targets	1.0	null
STAT3	ENCODE Transcription Factor Targets	1.0	null
WSU-FSCCL	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.880227
oncogene	GeneRIF Biological Term Annotations	1.0	null
KMS21BM	CCLE Cell Line Gene CNV Profiles	1.0	1.42913
EP300	ENCODE Transcription Factor Targets	1.0	null
BRCA1_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HS729	CCLE Cell Line Gene CNV Profiles	-1.0	-1.59459
HCC1576	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.45116
H3K36me3_endothelial cell of umbilical vein_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
effects	GeneRIF Biological Term Annotations	1.0	null
ZR7530	CCLE Cell Line Gene CNV Profiles	1.0	1.56067
H3K4me3_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K36me3_testis_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EFM-19	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.01111
MOGGUVW	CCLE Cell Line Gene CNV Profiles	-1.0	-2.04719
KYSE270	CCLE Cell Line Gene CNV Profiles	1.0	1.47601
H3K4me2_A549_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
H3K36me3_myotube_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KDM1A_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
AMO-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.958
CAL-85-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.866627
RERF-LC-OK	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.27192
transition	GeneRIF Biological Term Annotations	1.0	null
SW 1990	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.917526
MYC_K562_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
THP1	CCLE Cell Line Gene CNV Profiles	1.0	1.92465
epithelialmesenchymal	GeneRIF Biological Term Annotations	1.0	null
KDM5B_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
prostate	GTEx Tissue Gene Expression Profiles	1.0	1.28335
CHD2	ENCODE Transcription Factor Targets	1.0	null
chondrogenic	GeneRIF Biological Term Annotations	1.0	null
ATF3	ENCODE Transcription Factor Targets	1.0	null
MAFA	MotifMap Predicted Transcription Factor Targets	1.0	null
CEBPB_K562_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
diagnosed	GeneRIF Biological Term Annotations	1.0	null
KYSE-150	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.47821
GATA2	ENCODE Transcription Factor Targets	1.0	null
KYSE150	CCLE Cell Line Gene CNV Profiles	1.0	1.7542
JM1	CCLE Cell Line Gene CNV Profiles	1.0	1.44876
LP1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.66346
H3K79me2_astrocyte_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K9me1_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
HS 746T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.13122
KURAMOCHI	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.18904
KE39	CCLE Cell Line Gene CNV Profiles	-1.0	-1.36876
targeting	GeneRIF Biological Term Annotations	1.0	null
KELLY	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.968588
NCI-H2804	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.33929
SNU324	CCLE Cell Line Gene CNV Profiles	1.0	1.44287
H3K36me3_splenic B cell_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K36me3_keratinocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
A2780	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.878899
MYC_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCI-H2106	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00134
CHAGOK1	CCLE Cell Line Gene CNV Profiles	-1.0	-2.5564
IRF1	ENCODE Transcription Factor Targets	1.0	null
CREB1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MYC	ENCODE Transcription Factor Targets	1.0	null
H3K27ac_brown adipose tissue_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me1_HeLa-S3_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
HDAC2	ENCODE Transcription Factor Targets	1.0	null
CEBPB	ENCODE Transcription Factor Targets	1.0	null
SK-N-AS	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.05021
MOR	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.4489
TBP	ENCODE Transcription Factor Targets	1.0	null
H3K9ac_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
PML_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
A-375	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.919851
TC32	CCLE Cell Line Gene CNV Profiles	1.0	1.48436
STAT5A_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
JJN-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.15013
NTERA-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.10931
DEL	CCLE Cell Line Gene CNV Profiles	1.0	2.02348
cellsspecific	GeneRIF Biological Term Annotations	1.0	null
OVCAR-4	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.1744
OVSAHO	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.919851
POLR2A_HeLa-S3_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
105KC	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.958
GATA-X	MotifMap Predicted Transcription Factor Targets	1.0	null
19895320-Table2	GeneSigDB Published Gene Signatures	1.0	null
H3K36me3_brain_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
inhibits	GeneRIF Biological Term Annotations	1.0	null
ETS1	ENCODE Transcription Factor Targets	1.0	null
H3K79me2_fibroblast of lung_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K4me3_BE2C_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
H3K36me3_U2OS_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
upregulated	GeneRIF Biological Term Annotations	1.0	null
SW1271	CCLE Cell Line Gene CNV Profiles	-1.0	-1.37182
20068076-SuppTable9b	GeneSigDB Published Gene Signatures	1.0	null
CEBPD	ENCODE Transcription Factor Targets	1.0	null
heart	GeneRIF Biological Term Annotations	1.0	null
TAL1	ENCODE Transcription Factor Targets	1.0	null
CEBPD_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SK-MES-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.839173
newly	GeneRIF Biological Term Annotations	1.0	null
IRF1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
POLR2AphosphoS5_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K27ac_embryonic fibroblast_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
serum	GeneRIF Biological Term Annotations	1.0	null
G-361	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.42673
GATA2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RFX5_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ZR-75-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.14984
UM-UC-3	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.81808
H3K4me3_small intestine_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
POLR2A_MCF 10A_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HCC2270	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.01111
bladder	GTEx Tissue Gene Expression Profiles	1.0	1.12353
JUN_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
YMB1	CCLE Cell Line Gene CNV Profiles	1.0	2.4139
lines	GeneRIF Biological Term Annotations	1.0	null
MX-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.31419
adenocarcinoma	GeneRIF Biological Term Annotations	1.0	null
thbs1	GeneRIF Biological Term Annotations	1.0	null
H3K79me2_HepG2_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CAKI-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.64602
NCI-H1048	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.965612
H3K36me3_spleen_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HDAC1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
eGFP-JUND_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
G61	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.865795
POLR2A	ENCODE Transcription Factor Targets	1.0	null
adiposederived	GeneRIF Biological Term Annotations	1.0	null
OKAJIMA	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.22239
TRIM28_K562_hg19_3	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KMS-26	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.73131
ACCMESO1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.79757
MDAMB453	CCLE Cell Line Gene CNV Profiles	1.0	1.61058
microrna194	GeneRIF Biological Term Annotations	1.0	null
H3K4me1_embryonic fibroblast_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
POLR2A_HGPS cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
three	GeneRIF Biological Term Annotations	1.0	null
MOLP-8	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.965934
LCLC-103H	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.23419
BHY	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.10147
invasion	GeneRIF Biological Term Annotations	1.0	null
PK-45H	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.00286
H3K79me2_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K27ac_placenta_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K36me3_kidney_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HCC1599	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.18904
H3K36me3_A549_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
RERF-GC-1B	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.917526
JUND	ENCODE Transcription Factor Targets	1.0	null
ZMIZ1	ENCODE Transcription Factor Targets	1.0	null
H3K4me1_G1E-ER4_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
COLO 679	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.02731
TRIM28_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HS936T	CCLE Cell Line Gene CNV Profiles	-1.0	-1.46059
decreased	GeneRIF Biological Term Annotations	1.0	null
CEBPB_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
NCI-H810	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.866627
EP300_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
mir34a	GeneRIF Biological Term Annotations	1.0	null
20448109-Table2	GeneSigDB Published Gene Signatures	1.0	null
COV413A	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.84206
NR2F2	ENCODE Transcription Factor Targets	1.0	null
MAFK_HepG2_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
thrombospondin1	GeneRIF Biological Term Annotations	1.0	null
HDAC1	ENCODE Transcription Factor Targets	1.0	null
DU4475	CCLE Cell Line Gene CNV Profiles	1.0	1.84603
HDQP1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.34985
STAT3_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MAX_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTF2F1_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
subset	GeneRIF Biological Term Annotations	1.0	null
MAX	ENCODE Transcription Factor Targets	1.0	null
H3K4me3_BE2C_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
JUND_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
JJ012	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.901221
NCIH226	CCLE Cell Line Gene CNV Profiles	-1.0	-2.26185
H3K4me1_A549_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
negatively	GeneRIF Biological Term Annotations	1.0	null
LP-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.77056
common	GeneRIF Biological Term Annotations	1.0	null
OCI-AML2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.05978
EZH2_B cell_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K27ac_osteoblast_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
NCIH526	CCLE Cell Line Gene CNV Profiles	-1.0	-1.42922
UMUC3	CCLE Cell Line Gene CNV Profiles	-1.0	-1.7027
KPNSI9S	CCLE Cell Line Gene CNV Profiles	1.0	1.64935
TAL1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
JUN_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TCF7L2	ENCODE Transcription Factor Targets	1.0	null
BHLHE40	ENCODE Transcription Factor Targets	1.0	null
H3K4me1_megakaryocyte_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
interacted	GeneRIF Biological Term Annotations	1.0	null
H2AFZ	ENCODE Transcription Factor Targets	1.0	null
RFX5	ENCODE Transcription Factor Targets	1.0	null
mir192	GeneRIF Biological Term Annotations	1.0	null
TEAD4_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TBP_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HCC2157	COSMIC Cell Line Gene CNV Profiles	1.0	4.51153
PML_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HDAC2_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CTCF_fibroblast of dermis_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TRIM28	ENCODE Transcription Factor Targets	1.0	null
NCI-H1770	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.4489
HS 578T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.866627
JUN_K562_hg19_6	ENCODE Transcription Factor Binding Site Profiles	1.0	null
USF2	ENCODE Transcription Factor Targets	1.0	null
p53	GeneRIF Biological Term Annotations	1.0	null
CTCF	ENCODE Transcription Factor Targets	1.0	null
T84	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.967729
COLO704	CCLE Cell Line Gene CNV Profiles	1.0	1.3963
NCIH508	CCLE Cell Line Gene CNV Profiles	-1.0	-1.4311
showed	GeneRIF Biological Term Annotations	1.0	null
HCC1011	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.31949
KMS26	CCLE Cell Line Gene CNV Profiles	-1.0	-1.91398
TRIM28_U2OS_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
GTL-16	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.42673
H3K4me1_heart_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
across	GeneRIF Biological Term Annotations	1.0	null
POLR2A_HeLa-S3_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
THP-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.36898
MKN45	CCLE Cell Line Gene CNV Profiles	-1.0	-1.84631
MAFK_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
STAT5A	ENCODE Transcription Factor Targets	1.0	null
H3K36me3_CH12.LX_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
WM88	CCLE Cell Line Gene CNV Profiles	1.0	1.36374
H3K4me1_G1E-ER4_mm9_3	ENCODE Histone Modification Site Profiles	1.0	null
U-2932	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.15396
ZR751	CCLE Cell Line Gene CNV Profiles	1.0	3.25404
H3K36me3_cardiac mesoderm_hg19_8	ENCODE Transcription Factor Binding Site Profiles	1.0	null
failure	GeneRIF Biological Term Annotations	1.0	null
differentiation	GeneRIF Biological Term Annotations	1.0	null
OPM-2	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.21416
OCI-AML5	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.965934
PML	ENCODE Transcription Factor Targets	1.0	null
SKLMS1	CCLE Cell Line Gene CNV Profiles	-1.0	-1.79549
mesenchymal	GeneRIF Biological Term Annotations	1.0	null
SUPM2	CCLE Cell Line Gene CNV Profiles	1.0	1.91657
HS821T	CCLE Cell Line Gene CNV Profiles	-1.0	-2.03833
MYC_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
downregulated	GeneRIF Biological Term Annotations	1.0	null
NR2F2_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
activated	GeneRIF Biological Term Annotations	1.0	null
H3K36me3_NT2-D1_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K36me3_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
HCC78	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.869281
MDA-MB-435	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.865795
NCIH1385	CCLE Cell Line Gene CNV Profiles	1.0	2.27046
MAZ	ENCODE Transcription Factor Targets	1.0	null
JUN_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
G130	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.919851
NCIH1299	CCLE Cell Line Gene CNV Profiles	-1.0	-1.36266
YMB-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	3.19301
NCI-H2170	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.919851
H3K79me2_mammary epithelial cell_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
NR2F2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
forkhead	GeneRIF Biological Term Annotations	1.0	null
H3K27ac_small intestine_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
POLR2A_testis_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BRCA1	ENCODE Transcription Factor Targets	1.0	null
ARID3A	ENCODE Transcription Factor Targets	1.0	null
REST_01_338	KnockTF Gene Expression Profiles with Transcription Factor Perturbations	1.0	0.94073
H3K36me3_ES-E14_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TEAD4	ENCODE Transcription Factor Targets	1.0	null
NCI-H650	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.33926
H2AFZ_osteoblast_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
migration	GeneRIF Biological Term Annotations	1.0	null
EZH2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
CAL-148	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.880227
EZH2	ENCODE Transcription Factor Targets	1.0	null
tissue	GeneRIF Biological Term Annotations	1.0	null
H3K79me2_myotube_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H4K20me1_A549_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
ZR-75-30	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.72459
TBL1XR1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
STAT5A_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
JUN_K562_hg19_5	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H2AFZ_fibroblast of dermis_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
rcc	GeneRIF Biological Term Annotations	1.0	null
NCI-H1299	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.22318
G112	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.00958
CAL148	CCLE Cell Line Gene CNV Profiles	1.0	1.65665
KMS-27	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.16527
PK59	CCLE Cell Line Gene CNV Profiles	-1.0	-1.60817
JUND_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me2_K562_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
CEBPB_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TEF-1	MotifMap Predicted Transcription Factor Targets	1.0	null
ZMIZ1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_A549_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
RCOR1_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me1_megakaryocyte_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
SNU407	CCLE Cell Line Gene CNV Profiles	1.0	1.64322
SUPHD1	CCLE Cell Line Gene CNV Profiles	1.0	1.82527
clearly	GeneRIF Biological Term Annotations	1.0	null
TAF1	ENCODE Transcription Factor Targets	1.0	null
KDM1A	ENCODE Transcription Factor Targets	1.0	null
PK-59	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.73131
abilities	GeneRIF Biological Term Annotations	1.0	null
mdm2	GeneRIF Biological Term Annotations	1.0	null
CHP-212	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.05318
RPMI 8226	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.839173
HCC-15	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.33929
H3K4me3_Duodenum Mucosa	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
inhibiting	GeneRIF Biological Term Annotations	1.0	null
20485376-TableS3	GeneSigDB Published Gene Signatures	1.0	null
multiple	GeneRIF Biological Term Annotations	1.0	null
H3K36me3_GM12878_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
epithelial	GeneRIF Biological Term Annotations	1.0	null
suppressor	GeneRIF Biological Term Annotations	1.0	null
POLR2A_small intestine_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MM.1S	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.27313
preeclampsia	GeneRIF Biological Term Annotations	1.0	null
MDA-MB-453	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.965934
NCI-H2052	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.840356
ME-180	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.00335
G361	CCLE Cell Line Gene CNV Profiles	-1.0	-1.43582
ATF3_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
WM-115	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.05021
BHLHE40_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EP300_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
UCSD-242L	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.42673
YMB-1-E	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	2.15109
LN319	CCLE Cell Line Gene CNV Profiles	-1.0	-1.38713
JIMT-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.917526
HCC2218	CCLE Cell Line Gene CNV Profiles	1.0	2.42071
eGFP-GATA2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HCC193	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.22318
retrovirustransduced	GeneRIF Biological Term Annotations	1.0	null
769-P	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.22807
CCNT2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K79me2_A549_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
H3K36me3_small intestine_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K36me3_thymus_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
exosomes	GeneRIF Biological Term Annotations	1.0	null
ncadherin	GeneRIF Biological Term Annotations	1.0	null
LN-18	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.865795
NCIH650	CCLE Cell Line Gene CNV Profiles	-1.0	-1.41966
RCOR1	ENCODE Transcription Factor Targets	1.0	null
pancreatic	GeneRIF Biological Term Annotations	1.0	null
H3K4me1_HepG2_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
HCC2218	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.35634
FOXC1	JASPAR Predicted Transcription Factor Targets	1.0	null
JIYOYE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.968588
H3K4me1_G1E-ER4_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
NCI-H1693	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.20595
bmi1	GeneRIF Biological Term Annotations	1.0	null
FOSL1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
translational	GeneRIF Biological Term Annotations	1.0	null
AMO1	CCLE Cell Line Gene CNV Profiles	-1.0	-2.09269
hcc	GeneRIF Biological Term Annotations	1.0	null
RERF-LC-KJ	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.15013
mir9	GeneRIF Biological Term Annotations	1.0	null
ARID3A_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
endometrial	GeneRIF Biological Term Annotations	1.0	null
FOSL1	ENCODE Transcription Factor Targets	1.0	null
stem	GeneRIF Biological Term Annotations	1.0	null
then	GeneRIF Biological Term Annotations	1.0	null
suggesting	GeneRIF Biological Term Annotations	1.0	null
CEBPD_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
TRIM28_HEK293_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
DU4475	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.23002
HCC1143	CCLE Cell Line Gene CNV Profiles	1.0	1.66838
level	GeneRIF Biological Term Annotations	1.0	null
H3K36me3_ES-Bruce4_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HS 936.T	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.42673
NCI-H226	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.0129
NCI-H460	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.4489
EZH2_fibroblast of dermis_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ductal	GeneRIF Biological Term Annotations	1.0	null
H3K27ac_heart_mm9_2	ENCODE Histone Modification Site Profiles	1.0	null
MAFK	ENCODE Transcription Factor Targets	1.0	null
current	GeneRIF Biological Term Annotations	1.0	null
CCNT2	ENCODE Transcription Factor Targets	1.0	null
CA46	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.22095
mir194	GeneRIF Biological Term Annotations	1.0	null
CREB1	ENCODE Transcription Factor Targets	1.0	null
CHAGO-K-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-2.44036
CREB1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me2_HeLa-S3_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
JUN_K562_hg19_4	ENCODE Transcription Factor Binding Site Profiles	1.0	null
exhibits	GeneRIF Biological Term Annotations	1.0	null
TCF7L2_HEK293_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
KDM5B	ENCODE Transcription Factor Targets	1.0	null
TBL1XR1	ENCODE Transcription Factor Targets	1.0	null
MFM-223	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-3.11269
H3K4me3_Duodenum Smooth Muscle	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
G96	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.38075
regulated	GeneRIF Biological Term Annotations	1.0	null
particularly	GeneRIF Biological Term Annotations	1.0	null
CALU-6	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.966943
USF2_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
EP300_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
ATF1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K36me3_astrocyte_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
hct116	GeneRIF Biological Term Annotations	1.0	null
IRF1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_Colonic Mucosa	Roadmap Epigenomics Histone Modification Site Profiles	1.0	null
CUX1	ENCODE Transcription Factor Targets	1.0	null
NCI-H187	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.38075
micrornas	GeneRIF Biological Term Annotations	1.0	null
MAZ_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SW 1116	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-0.966943
H3K4me1_placenta_mm9_1	ENCODE Histone Modification Site Profiles	1.0	null
box	GeneRIF Biological Term Annotations	1.0	null
RCOR1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
HDAC2_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
SUM 229PE	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	1.84418
20028859-Table2	GeneSigDB Published Gene Signatures	1.0	null
circulating	GeneRIF Biological Term Annotations	1.0	null
EBC-1	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.19722
H3K36me3_BJ_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
MKN-45	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	-1.0	-1.81808
CUX1_K562_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
JHOS2	CCLE Cell Line Gene CNV Profiles	-1.0	-3.21049
reducing	GeneRIF Biological Term Annotations	1.0	null
CAL78	CCLE Cell Line Gene CNV Profiles	-1.0	-1.61879
H3K4me3_Caco-2_hg19_2	ENCODE Histone Modification Site Profiles	1.0	null
H3K36me3_heart_mm9_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
BT483	CCLE Cell Line Gene CNV Profiles	1.0	1.38903
HUPT4	CCLE Cell Line Gene CNV Profiles	-1.0	-1.53398
CHD2_HeLa-S3_hg19_1	ENCODE Transcription Factor Binding Site Profiles	1.0	null
H3K4me3_Caco-2_hg19_1	ENCODE Histone Modification Site Profiles	1.0	null
ATF1	ENCODE Transcription Factor Targets	1.0	null
RCOR1_K562_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null
phenotype	GeneRIF Biological Term Annotations	1.0	null
mirnas	GeneRIF Biological Term Annotations	1.0	null
iugr	GeneRIF Biological Term Annotations	1.0	null
OUMS-23	Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles	1.0	0.919851
TAF1_HeLa-S3_hg19_2	ENCODE Transcription Factor Binding Site Profiles	1.0	null