Variant report

Variant	rs57899428
Chromosome Location	chr16:82203797-82203798
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ARID3A	chr16:82203782-82203982	K562	blood:	n/a	n/a
2	ELF1	chr16:82203548-82204036	HepG2	liver:	n/a	chr16:82203652-82203664
3	POLR2A	chr16:82203282-82204437	H1-hESC	embryonic stem cell:	n/a	n/a
4	E2F6	chr16:82203445-82204598	K562	blood:	n/a	chr16:82203969-82203978 chr16:82203907-82203916 chr16:82203824-82203833 chr16:82203650-82203659
5	CTCF	chr16:82203700-82203850	NHEK	skin:	n/a	n/a
6	POLR2A	chr16:82203473-82203990	GM12878	blood:	n/a	n/a
7	POLR2A	chr16:82203447-82203914	GM12878	blood:	n/a	n/a
8	MAZ	chr16:82203399-82204535	IMR90	lung:	n/a	chr16:82203651-82203661 chr16:82204200-82204209 chr16:82204197-82204212 chr16:82203837-82203846 chr16:82204201-82204208
9	MAZ	chr16:82203582-82204258	HepG2	liver:	n/a	chr16:82203651-82203661 chr16:82204200-82204209 chr16:82204197-82204212 chr16:82203837-82203846 chr16:82204201-82204208
10	FOXA1	chr16:82203349-82204040	T-47D	breast:	n/a	n/a
11	CEBPB	chr16:82203751-82203965	HepG2	liver:	n/a	n/a
12	POLR2A	chr16:82203566-82204046	HCT-116	colon:	n/a	n/a
13	ATF3	chr16:82203551-82203958	K562	blood:	n/a	chr16:82203909-82203918
14	REST	chr16:82203377-82204165	HL-60	blood:	n/a	n/a
15	KAP1	chr16:82203403-82204429	HEK293	kidney:	n/a	n/a
16	CTCF	chr16:82203740-82203890	AG04450	lung:	n/a	n/a
17	MAX	chr16:82203410-82204516	SK-N-SH	brain:	n/a	chr16:82203651-82203661 chr16:82204199-82204209 chr16:82204200-82204209 chr16:82204197-82204212 chr16:82203837-82203846 chr16:82204201-82204208
18	YY1	chr16:82203620-82203982	HCT-116	colon:	n/a	chr16:82203904-82203918 chr16:82203650-82203659 chr16:82203650-82203664
19	GATA3	chr16:82203744-82204478	A549	lung:	n/a	chr16:82204235-82204246
20	POLR2A	chr16:82203481-82203978	SK-N-SH	brain:	n/a	n/a
21	CTCF	chr16:82203779-82203875	MCF-7	breast:	n/a	n/a
22	POLR2A	chr16:82203352-82203936	Hela-S3	cervix:	n/a	n/a
23	BHLHE40	chr16:82203428-82204348	HepG2	liver:	n/a	n/a
24	POLR2A	chr16:82200674-82204569	MCF10A-Er-Src	breast:	n/a	n/a
25	MAX	chr16:82203327-82204557	HepG2	liver:	n/a	chr16:82203651-82203661 chr16:82204199-82204209 chr16:82204200-82204209 chr16:82204197-82204212 chr16:82203837-82203846 chr16:82204201-82204208
26	MAX	chr16:82203394-82204562	ECC-1	luminal epithelium:	n/a	chr16:82203651-82203661 chr16:82204199-82204209 chr16:82204200-82204209 chr16:82204197-82204212 chr16:82203837-82203846 chr16:82204201-82204208
27	TAF1	chr16:82203417-82203979	HepG2	liver:	n/a	n/a
28	MYC	chr16:82203483-82204289	HepG2	liver:	n/a	chr16:82203651-82203661 chr16:82204199-82204209 chr16:82204200-82204209 chr16:82204197-82204212 chr16:82203837-82203846 chr16:82204201-82204208
29	ELF1	chr16:82203393-82204417	GM12878	blood:	n/a	chr16:82203652-82203664
30	HEY1	chr16:82203387-82203951	K562	blood:	n/a	n/a
31	TCF12	chr16:82203710-82203992	H1-hESC	embryonic stem cell:	n/a	n/a
32	MAX	chr16:82203321-82204532	HCT-116	colon:	n/a	chr16:82203651-82203661 chr16:82204199-82204209 chr16:82204200-82204209 chr16:82204197-82204212 chr16:82203837-82203846 chr16:82204201-82204208
33	PML	chr16:82203411-82204324	GM12878	blood:	n/a	n/a
34	YY1	chr16:82203624-82203930	GM12891	blood:	n/a	chr16:82203904-82203918 chr16:82203650-82203659 chr16:82203650-82203664
35	CTCF	chr16:82203646-82203846	GM12878	blood:	n/a	n/a
36	MAX	chr16:82203397-82204551	MCF-7	breast:	n/a	chr16:82203651-82203661 chr16:82204199-82204209 chr16:82204200-82204209 chr16:82204197-82204212 chr16:82203837-82203846 chr16:82204201-82204208
37	POLR2A	chr16:82203491-82203964	ECC-1	luminal epithelium:	n/a	n/a
38	POLR2A	chr16:82203385-82204084	K562	blood:	n/a	n/a
39	POLR2A	chr16:82203429-82203888	GM12891	blood:	n/a	n/a
40	CEBPD	chr16:82203484-82204114	HepG2	liver:	n/a	n/a
41	CTCF	chr16:82203700-82203850	GM12871	blood:	n/a	n/a
42	NRF1	chr16:82203647-82203999	Hela-S3	cervix:	n/a	chr16:82203971-82203980 chr16:82203839-82203848 chr16:82203822-82203833 chr16:82203823-82203837 chr16:82203969-82203978 chr16:82203823-82203834 chr16:82203907-82203916 chr16:82203837-82203848 chr16:82203904-82203918 chr16:82203825-82203834
43	POLR2A	chr16:82203306-82203979	Hela-S3	cervix:	n/a	n/a
44	CTCF	chr16:82203785-82203843	NHEK	skin:	n/a	n/a
45	HEY1	chr16:82203466-82203903	HepG2	liver:	n/a	n/a
46	E2F6	chr16:82203766-82204025	K562	blood:	n/a	chr16:82203969-82203978 chr16:82203907-82203916 chr16:82203824-82203833
47	UBTF	chr16:82203367-82204517	K562	blood:	n/a	n/a
48	CEBPB	chr16:82203556-82204068	Hela-S3	cervix:	n/a	n/a
49	HDAC2	chr16:82203793-82204036	K562	blood:	n/a	chr16:82203904-82203913
50	BHLHE40	chr16:82203395-82204432	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr16:82203331..82204094-chr7:94536560..94537463,2	HCT-116	colon:
2	chr16:82203390..82203935-chr19:13262639..13263471,2	Hela-S3	cervix:
3	chr16:82203527..82204190-chr2:26101329..26101957,2	HCT-116	colon:
4	chr11:64901980..64902550-chr16:82203349..82203968,2	Hela-S3	cervix:
5	chr16:82203331..82204106-chr20:18488610..18489467,2	Hela-S3	cervix:
6	chr15:81281954..81282793-chr16:82203347..82204123,2	Hela-S3	cervix:
7	chr11:62608799..62609639-chr16:82203591..82204468,2	NB4	blood:
8	chr16:82203368..82204098-chr18:711824..712742,2	NB4	blood:
9	chr16:82203572..82204072-chr6:31670450..31671114,2	Hela-S3	cervix:

Variant related genes	Relation type
ENSG00000261029	TF binding region
ENSG00000133316	Chromatin interaction
ENSG00000132199	Chromatin interaction
ENSG00000101310	Chromatin interaction
ENSG00000160888	Chromatin interaction
ENSG00000204427	Chromatin interaction
ENSG00000162298	Chromatin interaction
ENSG00000143970	Chromatin interaction
ENSG00000158528	Chromatin interaction
ENSG00000117899	Chromatin interaction

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs13335963	0.92[EUR][1000 genomes]
rs13337285	0.92[EUR][1000 genomes]
rs16956540	0.80[AFR][1000 genomes]
rs16956613	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs56704220	0.96[EUR][1000 genomes]
rs57035666	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs57080322	0.96[EUR][1000 genomes]
rs57573650	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs57928709	0.98[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs60776905	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61198904	0.98[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs62047176	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs6564988	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6564990	0.92[EUR][1000 genomes]
rs6564991	0.92[EUR][1000 genomes]
rs6564992	0.92[EUR][1000 genomes]
rs6564993	0.92[EUR][1000 genomes]
rs6564994	0.92[EUR][1000 genomes]
rs6564995	0.92[EUR][1000 genomes]
rs7184881	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7186070	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7191392	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7195032	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7196909	0.92[EUR][1000 genomes]
rs7200987	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7202424	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73591419	0.83[AFR][1000 genomes]
rs73591424	0.83[AFR][1000 genomes]
rs73591440	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73591450	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73591453	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73591454	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73591483	0.92[EUR][1000 genomes]
rs73591486	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73591491	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73591498	0.98[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73593205	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73593211	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73593219	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73593240	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73593254	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73593256	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs73593257	0.88[EUR][1000 genomes]
rs73593260	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs8050837	0.92[EUR][1000 genomes]
rs8053704	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs8056380	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs8057418	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs8057629	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs8060652	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs8061937	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532598	chr16:82034475-82738733	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	28 gene(s)	inside rSNPs	diseases
2	nsv532599	chr16:82074439-82926863	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	27 gene(s)	inside rSNPs	diseases
3	nsv573367	chr16:82140561-83040846	Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	27 gene(s)	inside rSNPs	diseases
4	nsv457579	chr16:82150293-82216622	Strong transcription Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	nsv573368	chr16:82150293-82216622	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
6	nsv525467	chr16:82154619-82223485	Weak transcription Flanking Active TSS Strong transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
7	nsv1061064	chr16:82165314-82213799	Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
8	nsv1056381	chr16:82165314-82215388	Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
9	nsv1062687	chr16:82165516-82213799	Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
10	nsv518129	chr16:82188173-82228076	Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
11	nsv833302	chr16:82188351-82363863	Weak transcription Strong transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
12	esv1844598	chr16:82195234-82429790	Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
13	esv1847414	chr16:82195234-82429790	Enhancers Active TSS Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
14	nsv532600	chr16:82197554-82314289	Enhancers Weak transcription Active TSS Genic enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
15	nsv907015	chr16:82203758-82284056	Active TSS Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:82202200-82204400	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr16:82202400-82204000	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr16:82202400-82204000	Active TSS	HUES48 Cell Line	embryonic stem cell
4	chr16:82202400-82204000	Active TSS	HUES64 Cell Line	embryonic stem cell
5	chr16:82202400-82204400	Active TSS	iPS-20b Cell Line	embryonic stem cell
6	chr16:82202400-82204400	Active TSS	HSMM	muscle
7	chr16:82202600-82204200	Active TSS	HUES6 Cell Line	embryonic stem cell
8	chr16:82202600-82204200	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr16:82202600-82204200	Active TSS	A549	lung
10	chr16:82202600-82204600	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr16:82202600-82204600	Active TSS	HSMMtube	muscle
12	chr16:82202600-82205000	Active TSS	Fetal Brain Female	brain
13	chr16:82202800-82204000	Active TSS	ES-I3 Cell Line	embryonic stem cell
14	chr16:82202800-82204000	Active TSS	H1 Cell Line	embryonic stem cell
15	chr16:82202800-82204000	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
16	chr16:82202800-82204000	Active TSS	Fetal Intestine Large	intestine
17	chr16:82202800-82204200	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr16:82202800-82204600	Active TSS	H9 Cell Line	embryonic stem cell
19	chr16:82202800-82204600	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr16:82202800-82204600	Active TSS	Pancreatic Islets	Pancreatic Islet
21	chr16:82202800-82204600	Active TSS	Psoas Muscle	Psoas
22	chr16:82203000-82204000	Active TSS	iPS-18 Cell Line	embryonic stem cell
23	chr16:82203000-82204000	Active TSS	Colonic Mucosa	Colon
24	chr16:82203000-82204000	Active TSS	Fetal Thymus	thymus
25	chr16:82203000-82204000	Active TSS	Gastric	stomach
26	chr16:82203000-82204000	Active TSS	Pancreas	Pancrea
27	chr16:82203000-82204000	Active TSS	HMEC	breast
28	chr16:82203000-82204200	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr16:82203000-82204200	Active TSS	Right Ventricle	heart
30	chr16:82203000-82204200	Active TSS	Osteobl	bone
31	chr16:82203000-82204400	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr16:82203000-82204400	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr16:82203000-82204400	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
34	chr16:82203000-82204400	Active TSS	Brain Substantia Nigra	brain
35	chr16:82203000-82204400	Active TSS	NHDF-Ad	bronchial
36	chr16:82203000-82204400	Active TSS	NHEK	skin
37	chr16:82203000-82204400	Active TSS	NHLF	lung
38	chr16:82203000-82204600	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr16:82203000-82204600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr16:82203000-82204600	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr16:82203000-82204600	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr16:82203000-82204600	Active TSS	Brain Angular Gyrus	brain
43	chr16:82203000-82204600	Active TSS	Brain Anterior Caudate	brain
44	chr16:82203000-82204600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
45	chr16:82203000-82204600	Active TSS	Skeletal Muscle Male	skeletal muscle
46	chr16:82203200-82204000	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
47	chr16:82203200-82204000	Active TSS	Primary B cells from peripheral blood	blood
48	chr16:82203200-82204000	Active TSS	Primary T cells from cord blood	blood
49	chr16:82203200-82204000	Active TSS	Primary hematopoietic stem cells short term culture	blood
50	chr16:82203200-82204000	Active TSS	Primary T helper naive cells fromperipheralblood	blood

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