Variant report

Variant	rs12081562
Chromosome Location	chr1:169176266-169176267
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:169171835..169174311-chr1:169174995..169177628,2	MCF-7	breast:

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs10047168	0.82[EUR][1000 genomes]
rs10800413	1.00[ASN][1000 genomes]
rs10800418	1.00[ASN][1000 genomes]
rs10800430	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10800445	0.85[EUR][1000 genomes]
rs10919079	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10919097	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10919098	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10919099	1.00[ASN][1000 genomes]
rs10919100	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10919101	1.00[ASN][1000 genomes]
rs10919104	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10919109	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10919110	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10919111	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10919131	0.87[AMR][1000 genomes]
rs10919151	0.82[EUR][1000 genomes]
rs10919156	0.82[EUR][1000 genomes]
rs10919157	0.82[EUR][1000 genomes]
rs11487548	0.85[EUR][1000 genomes]
rs11802239	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11805562	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11806445	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11807896	0.82[EUR][1000 genomes]
rs11810319	1.00[ASN][1000 genomes]
rs11810815	0.82[EUR][1000 genomes]
rs12058325	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12060959	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12061080	0.82[EUR][1000 genomes]
rs12061405	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12062884	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12063719	0.87[AMR][1000 genomes]
rs12065030	0.82[EUR][1000 genomes]
rs12067351	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12070031	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12071122	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12071224	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12073439	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12074013	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12074492	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12076519	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12080100	1.00[ASN][1000 genomes]
rs12082748	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12083249	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12088672	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12089602	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12091133	0.85[EUR][1000 genomes]
rs12092952	0.85[EUR][1000 genomes]
rs12094791	0.85[EUR][1000 genomes]
rs12097260	0.82[EUR][1000 genomes]
rs12097682	0.82[EUR][1000 genomes]
rs12140995	1.00[ASN][1000 genomes]
rs12565852	0.85[EUR][1000 genomes]
rs12740226	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2275300	0.82[EUR][1000 genomes]
rs2982468	0.87[AMR][1000 genomes]
rs35144581	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3753298	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3766052	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3766064	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3766077	1.00[ASN][1000 genomes]
rs3766082	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3766088	0.82[EUR][1000 genomes]
rs3766092	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3820057	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4656661	1.00[ASN][1000 genomes]
rs4656665	1.00[ASN][1000 genomes]
rs4656668	1.00[ASN][1000 genomes]
rs61806984	0.81[AMR][1000 genomes]
rs61808871	1.00[ASN][1000 genomes]
rs61808872	1.00[ASN][1000 genomes]
rs9628661	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3522071	chr1:168978325-169339044	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
2	esv3522072	chr1:168978325-169339044	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
3	nsv831858	chr1:169022383-169179068	Weak transcription Flanking Active TSS Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
4	esv10418	chr1:169059628-169621268	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169130400-169195200	Weak transcription	Pancreas	Pancrea
2	chr1:169163600-169184000	Weak transcription	Ovary	ovary
3	chr1:169167200-169176400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr1:169167800-169186800	Weak transcription	Primary T cells from cord blood	blood
5	chr1:169168000-169183800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr1:169171600-169184000	Weak transcription	Fetal Intestine Small	intestine
7	chr1:169172000-169176600	Weak transcription	Colon Smooth Muscle	Colon
8	chr1:169172400-169183800	Weak transcription	Brain Germinal Matrix	brain
9	chr1:169172400-169207600	Weak transcription	Esophagus	oesophagus
10	chr1:169172600-169227000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr1:169173200-169202000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr1:169173600-169183800	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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