Variant report

Variant	rs10217441
Chromosome Location	chr9:97637038-97637039
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:97634532..97637191-chr9:97769954..97772571,2	MCF-7	breast:

Extended variants
information (count: 120 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:119)

rs_ID	r²[population]
rs10125566	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1020962	1.00[CEU][hapmap]
rs1038092	1.00[CEU][hapmap]
rs10732407	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10733756	0.82[EUR][1000 genomes]
rs10739988	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10739990	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10739991	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10761362	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs10761363	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10761371	1.00[CEU][hapmap]
rs10821407	0.83[AMR][1000 genomes]
rs10821411	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10993386	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1113967	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12551506	0.84[AMR][1000 genomes]
rs12552838	0.84[AMR][1000 genomes]
rs12554043	1.00[TSI][hapmap];0.84[AMR][1000 genomes]
rs12555128	1.00[GIH][hapmap];1.00[TSI][hapmap]
rs12683896	0.84[AMR][1000 genomes]
rs1530331	0.85[TSI][hapmap];0.83[AMR][1000 genomes]
rs1542107	1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1542108	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1564235	1.00[CEU][hapmap]
rs1571896	1.00[CEU][hapmap]
rs16911834	0.84[AMR][1000 genomes]
rs1871220	1.00[CEU][hapmap]
rs1888944	1.00[CEU][hapmap]
rs1904201	0.81[AMR][1000 genomes]
rs191654	0.85[EUR][1000 genomes]
rs2026399	1.00[TSI][hapmap];0.81[AMR][1000 genomes]
rs2061798	1.00[CEU][hapmap]
rs2061799	1.00[CEU][hapmap]
rs2061801	1.00[CEU][hapmap]
rs2095069	1.00[TSI][hapmap];0.84[AMR][1000 genomes]
rs2099868	0.85[EUR][1000 genomes]
rs2119953	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2165715	1.00[CHB][hapmap];1.00[GIH][hapmap];0.85[TSI][hapmap];0.85[EUR][1000 genomes]
rs2406897	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2406898	1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2584805	1.00[CHB][hapmap];1.00[GIH][hapmap];0.85[TSI][hapmap];0.85[EUR][1000 genomes]
rs2897523	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs356125	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs356128	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs356132	0.85[EUR][1000 genomes]
rs356133	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs356136	0.85[EUR][1000 genomes]
rs356139	0.85[EUR][1000 genomes]
rs356145	0.85[EUR][1000 genomes]
rs356147	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs356148	1.00[CHB][hapmap];1.00[GIH][hapmap];0.85[TSI][hapmap];0.85[EUR][1000 genomes]
rs356149	0.85[EUR][1000 genomes]
rs365465	0.85[EUR][1000 genomes]
rs367319	0.85[EUR][1000 genomes]
rs3739748	1.00[CEU][hapmap]
rs3847311	0.97[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3886568	1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3887267	1.00[CHB][hapmap];1.00[GIH][hapmap];0.85[TSI][hapmap]
rs3910730	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4332191	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs438742	1.00[CHB][hapmap];1.00[GIH][hapmap];0.85[TSI][hapmap];0.85[EUR][1000 genomes]
rs448899	0.85[EUR][1000 genomes]
rs456276	1.00[CHB][hapmap];1.00[GIH][hapmap];0.85[TSI][hapmap];0.85[EUR][1000 genomes]
rs457795	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs4743968	0.85[EUR][1000 genomes]
rs4743972	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4743973	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4743975	1.00[CEU][hapmap]
rs4743977	1.00[CEU][hapmap]
rs4744382	0.85[EUR][1000 genomes]
rs4744387	0.83[AMR][1000 genomes]
rs4744388	0.85[EUR][1000 genomes]
rs4744389	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4744402	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4744421	1.00[CEU][hapmap]
rs555799	0.82[EUR][1000 genomes]
rs562605	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs60120	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs6479569	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs6479574	1.00[CHB][hapmap]
rs6479575	0.85[EUR][1000 genomes]
rs6479576	0.83[AMR][1000 genomes]
rs6479578	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6479579	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6479581	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6479582	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6479583	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs66993340	0.81[AMR][1000 genomes]
rs67208365	0.85[EUR][1000 genomes]
rs67490803	0.84[AMR][1000 genomes]
rs68090960	0.85[EUR][1000 genomes]
rs7019602	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7022963	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs7023719	1.00[CEU][hapmap]
rs7025100	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7025934	0.81[AMR][1000 genomes]
rs7026714	0.83[AMR][1000 genomes]
rs7029570	0.85[TSI][hapmap];0.84[AMR][1000 genomes]
rs7030703	0.84[AMR][1000 genomes]
rs7031637	0.88[AMR][1000 genomes]
rs7035166	0.85[TSI][hapmap];0.83[AMR][1000 genomes]
rs7038519	0.83[AMR][1000 genomes]
rs7038891	1.00[CHB][hapmap];1.00[GIH][hapmap];0.85[TSI][hapmap];0.85[EUR][1000 genomes]
rs7044371	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7046900	0.84[AMR][1000 genomes]
rs7047478	0.85[EUR][1000 genomes]
rs72748601	0.84[AMR][1000 genomes]
rs7341710	0.85[EUR][1000 genomes]
rs7852844	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7855781	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs7864389	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7867856	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7869736	1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7870679	0.83[AMR][1000 genomes]
rs894425	1.00[CHB][hapmap]
rs894426	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs894427	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs894428	0.83[AMR][1000 genomes]
rs9409805	0.85[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933919	chr9:97619512-97919344	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	293 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97625000-97637800	Weak transcription	Primary B cells from cord blood	blood
2	chr9:97626000-97638200	Enhancers	HSMM	muscle
3	chr9:97626000-97638400	Enhancers	HSMMtube	muscle
4	chr9:97627200-97638000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr9:97627400-97637800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr9:97628600-97641000	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr9:97630000-97638400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr9:97630000-97645000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr9:97630200-97637600	Enhancers	Osteobl	bone
10	chr9:97630200-97638000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr9:97630200-97638200	Enhancers	Muscle Satellite Cultured Cells	--
12	chr9:97630200-97638200	Enhancers	NHDF-Ad	bronchial
13	chr9:97630200-97640800	Weak transcription	Monocytes-CD14+_RO01746	blood
14	chr9:97630600-97637800	Weak transcription	Primary hematopoietic stem cells	blood
15	chr9:97630600-97643600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr9:97630800-97644200	Weak transcription	Adipose Nuclei	Adipose
17	chr9:97631000-97637200	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr9:97631000-97637600	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr9:97631000-97637800	Weak transcription	Aorta	Aorta
20	chr9:97631000-97640000	Weak transcription	Brain Hippocampus Middle	brain
21	chr9:97631800-97637800	Weak transcription	Brain Cingulate Gyrus	brain
22	chr9:97631800-97645600	Weak transcription	Small Intestine	intestine
23	chr9:97632000-97637600	Weak transcription	Liver	Liver
24	chr9:97632000-97640600	Weak transcription	K562	blood
25	chr9:97632000-97646000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr9:97633400-97637200	Enhancers	NHEK	skin
27	chr9:97633400-97638000	Weak transcription	Duodenum Mucosa	Duodenum
28	chr9:97633400-97640600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr9:97633400-97646800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr9:97633400-97671800	Weak transcription	Esophagus	oesophagus
31	chr9:97633600-97637400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr9:97633600-97637600	Weak transcription	Primary B cells from peripheral blood	blood
33	chr9:97633600-97637800	Enhancers	Placenta Amnion	Placenta Amnion
34	chr9:97633800-97637200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr9:97634000-97646600	Weak transcription	Spleen	Spleen
36	chr9:97634000-97646800	Weak transcription	Stomach Mucosa	stomach
37	chr9:97634200-97637200	Weak transcription	Psoas Muscle	Psoas
38	chr9:97634200-97637200	Weak transcription	Skeletal Muscle Male	skeletal muscle
39	chr9:97634400-97637200	Weak transcription	Skeletal Muscle Female	skeletal muscle
40	chr9:97634400-97637400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr9:97634400-97638400	Enhancers	Hela-S3	cervix
42	chr9:97634600-97637200	Enhancers	HUVEC	blood vessel
43	chr9:97634600-97637800	Enhancers	NH-A	brain
44	chr9:97634600-97640000	Weak transcription	Primary T helper cells PMA-I stimulated	--
45	chr9:97634800-97640000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
46	chr9:97635000-97637800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr9:97635200-97640600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
48	chr9:97635200-97645600	Weak transcription	Placenta	Placenta
49	chr9:97635400-97644200	Weak transcription	Left Ventricle	heart
50	chr9:97635600-97642200	Weak transcription	Fetal Lung	lung

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