Variant report

Variant	rs11196924
Chromosome Location	chr10:116571796-116571797
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:116567584..116574580-chr10:116575101..116583231,11	MCF-7	breast:

Variant related genes	Relation type
ENSG00000151553	Chromatin interaction

Extended variants
information (count: 108 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:103)

rs_ID	r²[population]
rs1046492	0.90[ASW][hapmap]
rs10490909	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10885613	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10885614	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10885616	0.85[CHB][hapmap];0.86[CHD][hapmap];0.87[JPT][hapmap]
rs10885618	0.89[EUR][1000 genomes]
rs10885620	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10885621	0.80[ASN][1000 genomes]
rs10885622	0.88[CEU][hapmap];0.93[CHB][hapmap];0.94[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11196925	0.80[ASN][1000 genomes]
rs11196926	0.85[CHB][hapmap];0.91[CHD][hapmap];0.87[JPT][hapmap];0.80[ASN][1000 genomes]
rs11196929	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11196930	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11196931	0.80[ASN][1000 genomes]
rs11196932	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11196935	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11196936	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11196937	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11196939	0.90[ASW][hapmap];1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.81[YRI][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11196940	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11196941	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11196942	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11196943	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11196944	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11196945	0.96[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11196946	0.80[ASN][1000 genomes]
rs11196947	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11196948	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11196950	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11196951	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11196952	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11196953	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11196954	0.85[CHB][hapmap];0.86[CHD][hapmap];0.87[JPT][hapmap]
rs11196959	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11196962	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11819372	0.85[CEU][hapmap];0.94[CHD][hapmap];0.87[GIH][hapmap];0.87[JPT][hapmap];0.93[TSI][hapmap];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12218498	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12411629	0.85[CHB][hapmap];0.87[JPT][hapmap]
rs12414613	0.85[CHB][hapmap];0.86[CHD][hapmap];0.87[JPT][hapmap]
rs12415173	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1359079	0.90[ASW][hapmap];1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.81[YRI][hapmap];0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1359080	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17092480	0.80[ASN][1000 genomes]
rs17092491	0.85[CHB][hapmap];0.87[JPT][hapmap];0.80[ASN][1000 genomes]
rs17092542	0.90[ASW][hapmap]
rs17095662	0.96[CEU][hapmap];0.93[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.95[TSI][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17586888	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17663387	0.92[CEU][hapmap];0.81[CHB][hapmap];0.94[CHD][hapmap];0.89[GIH][hapmap];0.94[JPT][hapmap];0.98[TSI][hapmap];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17663670	0.90[ASW][hapmap];1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.81[YRI][hapmap];0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1924034	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1966384	0.90[ASW][hapmap]
rs2016966	0.87[JPT][hapmap]
rs2146805	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2146806	0.98[AFR][1000 genomes]
rs2181563	0.96[CEU][hapmap];0.81[CHB][hapmap];0.94[CHD][hapmap];0.87[GIH][hapmap];0.93[JPT][hapmap];0.98[TSI][hapmap];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2286632	0.85[CHB][hapmap];0.87[JPT][hapmap]
rs2420065	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2420066	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2420067	0.90[ASW][hapmap];1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.81[YRI][hapmap];0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2420069	0.90[ASW][hapmap];1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.81[YRI][hapmap];0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35221086	0.85[ASN][1000 genomes]
rs35453961	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs36036948	0.87[AFR][1000 genomes]
rs3758603	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4277024	0.80[ASN][1000 genomes]
rs4752255	0.96[CEU][hapmap];0.81[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];0.94[JPT][hapmap];0.98[TSI][hapmap];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4752256	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4752322	0.92[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4752347	0.88[CEU][hapmap];0.94[JPT][hapmap];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs55671354	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55759483	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs58587374	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61596353	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61867965	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61868024	0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6585300	0.84[CEU][hapmap];0.93[JPT][hapmap];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7077148	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7079877	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7081975	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7082836	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7093686	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7095816	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72833128	0.80[ASN][1000 genomes]
rs72833130	0.80[ASN][1000 genomes]
rs758585	0.92[CEU][hapmap];0.94[CHD][hapmap];0.89[GIH][hapmap];0.94[JPT][hapmap];0.95[TSI][hapmap];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs765173	0.92[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs765174	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7895830	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7897937	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7898347	0.88[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7903663	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7904188	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7907837	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7908237	0.89[EUR][1000 genomes]
rs7908665	0.92[CEU][hapmap];0.81[CHB][hapmap];0.94[CHD][hapmap];0.87[GIH][hapmap];0.94[JPT][hapmap];0.98[TSI][hapmap];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7914792	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7915943	0.96[CEU][hapmap];0.86[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.92[MEX][hapmap];0.93[TSI][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7918129	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7919649	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7920216	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7923295	0.90[ASW][hapmap]
rs7923693	0.92[CEU][hapmap];0.81[CHB][hapmap];0.94[CHD][hapmap];0.89[GIH][hapmap];0.94[JPT][hapmap];0.98[TSI][hapmap];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8181444	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949138	chr10:116311531-116874477	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv1038050	chr10:116315109-116895719	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
3	nsv533027	chr10:116344641-116856352	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
4	esv3435429	chr10:116394152-117006347	Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
5	esv1814163	chr10:116519705-116582581	Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs11196924	FAM160B1	cis	Adipose Subcutaneous	GTEx
rs11196924	ABLIM1	cis	parietal	SCAN
rs11196924	ADRB1	cis	parietal	SCAN
rs11196924	TRUB1	cis	cerebellum	SCAN
rs11196924	TRUB1	cis	parietal	SCAN

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:116556800-116572800	Weak transcription	Pancreas	Pancrea
2	chr10:116567600-116571800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
3	chr10:116568000-116572200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
4	chr10:116568600-116571800	Enhancers	Primary T cells fromperipheralblood	blood
5	chr10:116569000-116572200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
6	chr10:116569800-116580600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr10:116570400-116571800	Enhancers	Primary T helper naive cells from peripheral blood	blood
8	chr10:116570400-116572000	Enhancers	Primary T helper cells fromperipheralblood	blood
9	chr10:116570400-116572000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr10:116570600-116572600	Enhancers	Fetal Thymus	thymus
11	chr10:116570600-116574000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr10:116570600-116575600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
13	chr10:116571000-116572200	Enhancers	GM12878-XiMat	blood
14	chr10:116571000-116580600	Weak transcription	Primary hematopoietic stem cells	blood
15	chr10:116571200-116573000	Enhancers	Thymus	Thymus
16	chr10:116571600-116571800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr10:116571600-116572200	Flanking Active TSS	Dnd41	blood

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