Variant report

Variant	rs11790161
Chromosome Location	chr9:104150729-104150730
allele	C/T
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	CTCF	chr9:104150728-104151063	A549	lung:	n/a	n/a
2	POLR2A	chr9:104150051-104151161	HepG2	liver:	n/a	n/a
3	ARID3A	chr9:104150026-104151413	HepG2	liver:	n/a	n/a
4	FOXA2	chr9:104149885-104152240	HepG2	liver:	n/a	n/a
5	MAX	chr9:104150131-104150939	A549	lung:	n/a	n/a
6	CEBPB	chr9:104150640-104151361	HepG2	liver:	n/a	chr9:104151211-104151222
7	FOXA1	chr9:104150588-104151626	HepG2	liver:	n/a	chr9:104151158-104151173 chr9:104151176-104151191
8	POLR2A	chr9:104147384-104152636	K562	blood:	n/a	n/a
9	TEAD4	chr9:104149996-104151429	HepG2	liver:	n/a	n/a
10	CTCF	chr9:104149236-104151356	A549	lung:	n/a	chr9:104149368-104149375
11	POLR2A	chr9:104150488-104150938	HepG2	liver:	n/a	n/a
12	BRCA1	chr9:104150514-104151103	H1-hESC	embryonic stem cell:	n/a	n/a
13	POLR2A	chr9:104150141-104151077	HepG2	liver:	n/a	n/a
14	RAD21	chr9:104150726-104151076	H1-hESC	embryonic stem cell:	n/a	n/a
15	FOXA1	chr9:104150693-104151274	HepG2	liver:	n/a	chr9:104151158-104151173 chr9:104151176-104151191
16	CTCF	chr9:104150679-104151202	HCT-116	colon:	n/a	n/a
17	RAD21	chr9:104150639-104151170	A549	lung:	n/a	n/a
18	MYBL2	chr9:104149778-104151089	HepG2	liver:	n/a	n/a
19	SMC3	chr9:104149856-104151215	HepG2	liver:	n/a	n/a
20	NFIC	chr9:104149382-104151366	HepG2	liver:	n/a	n/a
21	CTCF	chr9:104150621-104151134	HepG2	liver:	n/a	n/a
22	POLR2A	chr9:104150559-104150840	MCF-7	breast:	n/a	n/a
23	CTCF	chr9:104150720-104150870	HCM	heart:	n/a	n/a
24	RAD21	chr9:104150616-104151080	A549	lung:	n/a	n/a
25	FOXA1	chr9:104150611-104151486	HepG2	liver:	n/a	chr9:104151158-104151173 chr9:104151176-104151191
26	CEBPB	chr9:104150678-104150932	A549	lung:	n/a	n/a
27	FOXA2	chr9:104150692-104151541	A549	lung:	n/a	n/a
28	RAD21	chr9:104150612-104151218	HepG2	liver:	n/a	n/a
29	RAD21	chr9:104150643-104151209	A549	lung:	n/a	n/a
30	RAD21	chr9:104149838-104151245	HepG2	liver:	n/a	n/a
31	CTCF	chr9:104150680-104150830	GM12875	blood:	n/a	n/a
32	CTCF	chr9:104150700-104150850	HAc	cerebellar:	n/a	n/a
33	CTCF	chr9:104150600-104150750	NHLF	lung:	n/a	n/a
34	POLR2A	chr9:104150656-104151018	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr9:104078007..104078883-chr9:104149799..104150989,4	MCF-7	breast:
2	chr9:104146547..104152154-chr9:104159060..104162261,6	K562	blood:
3	chr9:104149633..104152570-chr9:104154465..104155982,2	K562	blood:
4	chr9:104148610..104154266-chr9:104158623..104161916,13	K562	blood:

Variant related genes	Relation type
BAAT	TF binding region
ENSG00000136870	Chromatin interaction
ENSG00000136897	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs11791228	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11792290	0.88[CEU][hapmap]
rs11792975	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17765053	0.88[CEU][hapmap]
rs17765735	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17765829	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1935241	0.83[EUR][1000 genomes]
rs28447257	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2900307	0.83[EUR][1000 genomes]
rs41281029	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56043065	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56129942	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56213740	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56316181	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56363836	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73509627	0.83[EUR][1000 genomes]
rs73509628	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3483873	chr9:104149936-104150910	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats	TF binding region Chromatin interactive region	4 gene(s)	inside rSNPs	n/a
2	esv3483875	chr9:104150108-104150803	Strong transcription Weak transcription Genic enhancers Enhancers ZNF genes & repeats	TF binding region Chromatin interactive region	4 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:104117800-104160000	Weak transcription	Pancreas	Pancrea
2	chr9:104139000-104156600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr9:104139200-104151400	Weak transcription	Osteobl	bone
4	chr9:104139400-104151600	Weak transcription	NH-A	brain
5	chr9:104142800-104151000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr9:104142800-104151000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr9:104143000-104150800	Weak transcription	HMEC	breast
8	chr9:104144600-104156600	Weak transcription	Aorta	Aorta
9	chr9:104144800-104151400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr9:104144800-104159800	Weak transcription	NHEK	skin
11	chr9:104145800-104152000	Weak transcription	Brain Substantia Nigra	brain
12	chr9:104146400-104150800	Weak transcription	NHDF-Ad	bronchial
13	chr9:104146600-104150800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr9:104146800-104159800	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr9:104147600-104156600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr9:104147600-104160200	Weak transcription	Gastric	stomach
17	chr9:104147800-104150800	Weak transcription	Primary T cells from cord blood	blood
18	chr9:104147800-104152800	Weak transcription	Thymus	Thymus
19	chr9:104147800-104160000	Weak transcription	HSMMtube	muscle
20	chr9:104148000-104150800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
21	chr9:104148000-104150800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr9:104148000-104151400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr9:104148000-104151400	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr9:104148000-104152600	Weak transcription	H9 Cell Line	embryonic stem cell
25	chr9:104148000-104157600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
26	chr9:104148000-104159400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr9:104148200-104150800	Weak transcription	Primary B cells from peripheral blood	blood
28	chr9:104148200-104150800	Weak transcription	Adipose Nuclei	Adipose
29	chr9:104148200-104151200	Weak transcription	Primary B cells from cord blood	blood
30	chr9:104148200-104151400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr9:104148200-104152000	Weak transcription	Fetal Muscle Trunk	muscle
32	chr9:104148200-104159800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
33	chr9:104148400-104153800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr9:104148400-104156600	Weak transcription	Psoas Muscle	Psoas
35	chr9:104148600-104152600	Weak transcription	Ovary	ovary
36	chr9:104148600-104153400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr9:104148800-104151400	Weak transcription	H1 Cell Line	embryonic stem cell
38	chr9:104148800-104151400	Weak transcription	Primary neutrophils fromperipheralblood	blood
39	chr9:104148800-104152400	Weak transcription	Brain Germinal Matrix	brain
40	chr9:104148800-104153000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
41	chr9:104149000-104150800	Enhancers	HepG2	liver
42	chr9:104149000-104151200	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr9:104149000-104152000	Genic enhancers	A549	lung
44	chr9:104149000-104160000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
45	chr9:104149000-104160000	Weak transcription	Right Ventricle	heart
46	chr9:104149200-104150800	Weak transcription	Placenta	Placenta
47	chr9:104149200-104150800	Weak transcription	Stomach Smooth Muscle	stomach
48	chr9:104149200-104153600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
49	chr9:104149200-104157600	Weak transcription	Fetal Lung	lung
50	chr9:104149200-104160000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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