Variant report

Variant	rs303501
Chromosome Location	chr10:90553673-90553674
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:90548383..90549951-chr10:90552065..90554199,2	MCF-7	breast:

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs1653840	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs303469	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs303470	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs303472	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs303473	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs303476	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs303477	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs303480	0.99[EUR][1000 genomes]
rs303481	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs303484	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs303485	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs303486	0.99[EUR][1000 genomes]
rs303490	0.97[EUR][1000 genomes]
rs303491	0.99[EUR][1000 genomes]
rs303492	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs303493	1.00[CEU][hapmap];0.99[EUR][1000 genomes]
rs303494	1.00[JPT][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs303496	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs303497	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs303498	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs303530	0.97[EUR][1000 genomes]
rs303533	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs303534	0.93[EUR][1000 genomes]
rs303535	0.89[EUR][1000 genomes]
rs303536	0.93[EUR][1000 genomes]
rs303538	0.93[CEU][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs303540	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs370117	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs372444	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs377183	0.99[EUR][1000 genomes]
rs402781	0.99[EUR][1000 genomes]
rs425028	0.99[EUR][1000 genomes]
rs438612	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs450011	0.99[EUR][1000 genomes]
rs814629	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs814631	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs814636	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529324	chr10:90198865-90738588	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv831941	chr10:90410488-90587332	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv1042848	chr10:90466032-91318474	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
4	nsv540741	chr10:90466032-91318474	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
5	nsv1043015	chr10:90467067-90593692	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
6	nsv467415	chr10:90478483-90600865	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases
7	nsv551840	chr10:90478483-90600865	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90550600-90554000	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr10:90551000-90555000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr10:90551400-90554600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr10:90551800-90554800	Enhancers	Muscle Satellite Cultured Cells	--
5	chr10:90551800-90555000	Enhancers	Osteobl	bone
6	chr10:90552000-90554000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr10:90552000-90555600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr10:90552200-90554000	Enhancers	HMEC	breast
9	chr10:90552200-90554000	Enhancers	NH-A	brain
10	chr10:90552200-90554200	Enhancers	GM12878-XiMat	blood
11	chr10:90552200-90554800	Enhancers	NHDF-Ad	bronchial
12	chr10:90552200-90555000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr10:90552400-90554000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr10:90552400-90554800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
15	chr10:90552800-90553800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr10:90552800-90553800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr10:90552800-90553800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr10:90552800-90553800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr10:90552800-90554800	Enhancers	Hela-S3	cervix
20	chr10:90553000-90554400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
21	chr10:90553200-90554200	Enhancers	Primary T helper cells PMA-I stimulated	--
22	chr10:90553200-90560400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr10:90553400-90553800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
24	chr10:90553400-90554000	Enhancers	Primary T helper cells fromperipheralblood	blood
25	chr10:90553400-90554000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr10:90553400-90554200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
27	chr10:90553400-90554200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr10:90553400-90554200	Enhancers	NHEK	skin
29	chr10:90553400-90554200	Enhancers	NHLF	lung
30	chr10:90553400-90554400	Enhancers	A549	lung
31	chr10:90553600-90554000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
32	chr10:90553600-90554000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr10:90553600-90554200	Enhancers	Monocytes-CD14+_RO01746	blood

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