Table 3. Most informative ENCODE datasets by correlation of deltaSVM scores with mutation impact.

Promoters
region	dataset	rank	corr	Description
F9	TF_E2_41	1	0.600	GAbisphenol A ChIP-seq on ethanol treated A549
F9	TF_E3_346	2	0.592	ETV4 ChIP-seq on human HepG2
F9	TF_E3_472	3	0.587	3xFLAG-KAT8 ChIP-seq on human HepG2
GP1BB	TF_E2_274	1	0.414	GABPA ChIP-seq on K562
GP1BB	DHS_E2_95e	2	0.410	CMK
GP1BB	DHS_E2_56e	3	0.398	K562
HBB	DHS_E3_182p	1	0.500	hematopoietic multipotent progenitor cell
HBB	DHS_E3_157p	2	0.494	L1-S8R
HBB	DHS_E2_1e	3	0.494	K562
HBG1	TF_E2_113	1	0.472	NFYB ChIP-seq on human GM12878
HBG1	TF_E2_290	2	0.457	NFYB ChIP-seq on human K562
HBG1	TF_E2_229	3	0.439	NFYA ChIP-seq on human K562
HNF4A	TF_E3_761	1	0.309	EGR1 ChIP-seq on human K562
HNF4A	TF_E2_233	2	0.305	EGR1 ChIP-seq on human K562
HNF4A	TF_E3_765	3	0.302	EGR1 ChIP-seq on human K562
LDLR	TF_E3_505	1	0.539	3xFLAG-SP5 ChIP-seq on human HepG2
LDLR	TF_E3_234	2	0.510	eGFP-SP3 ChIP-seq on human HEK293
LDLR	TF_E2_226	3	0.482	IRF1 ChIP-seq on IFN treated human K562
MSMB	DHS_E2_13e	1	0.362	fibroblast of villous mesenchyme
MSMB	TF_E3_244	2	0.361	eGFP-PRDM6 ChIP-seq on human HEK293
MSMB	TF_E3_267	3	0.332	eGFP-ZNF629 ChIP-seq on human HEK293
PKLR	DHS_E2_1e	1	0.496	K562
PKLR	DHS_E3_130e	2	0.495	liver embryo (59 days) and embryo (80 days)
PKLR	TF_E2_345	3	0.492	TBL1XR1 ChIP-seq on human K562
TERT-GBM	DHS_E2_95p	1	0.603	CMK
TERT-GBM	TF_E2_200	2	0.597	GABPA ChIP-seq on human HepG2
TERT-GBM	DHS_E3_11p	3	0.585	PC-3
TERT-HEK293T	TF_E3_666	1	0.554	GABPB1 ChIP-seq on human K562
TERT-HEK293T	TF_E2_200	2	0.550	GABPA ChIP-seq on human HepG2
TERT-HEK293T	TF_E3_407	3	0.547	3xFLAG-GABPA ChIP-seq on human HepG2
Enhancers
region	dataset	rank	corr	Description
IRF4	DHS_E3_110e	1	0.581	SK-MEL-5
IRF4	DHS_RM_214e	2	0.574	foreskin melanocyte male newborn
IRF4	DHS RM 14e	3	0.572	foreskin melanocyte male newborn
IRF6	DHS_E2_126e	1	0.356	bronchial epithelial cell - retinoic acid
IRF6	DHS_E2_42e	2	0.351	keratinocyte female
IRF6	DHS RM 17e	3	0.348	foreskin keratinocyte male newborn
MYC	TF_E2_152	1	0.395	CTCF ChIP-seq on human HeLa-S3
MYC	TF_E3_2	2	0.394	SMC3 ChIP-seq on human A549
MYC	TF_E2_188	3	0.39	RAD21 ChIP-seq on human HepG2
SORT1	TF_E2_175	1	0.508	CEBPB ChIP-seq on human HepG2
SORT1	TF_E3_401	2	0.498	SOX13 ChIP-seq on human HepG2
SORT1	TF_E3_473	3	0.492	3xFLAG-SOX13 ChIP-seq on human HepG2
ZFAND3	DHS_RM_146e	1	0.397	brain female embryo (85 days)
ZFAND3	TF_E2_394	2	0.392	RFX5 ChIP-seq on human SK-N-SH
ZFAND3	DHS_E3_166e	3	0.384	adrenal gland male adult (37 years)