Variant report

Variant	rs10829066
Chromosome Location	chr10:27087849-27087850
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	chr10:27087122..27088975-chr10:27089037..27091906,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11015244	0.82[YRI][hapmap]
rs11015277	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs11015278	1.00[ASW][hapmap];0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap]
rs11015287	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs11015290	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs11015299	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs12220354	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs12220461	0.88[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.90[TSI][hapmap];1.00[YRI][hapmap]
rs12221372	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.85[JPT][hapmap];0.95[TSI][hapmap]
rs17816509	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[YRI][hapmap]
rs1998633	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs2505971	1.00[JPT][hapmap]
rs3802616	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs4749190	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs4749194	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]

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	esv3415799	chr10:26929831-27233591	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv933544	chr10:27005220-27111998	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv831812	chr10:27061506-27234267	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv971858	chr10:27066006-27157708	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:27070800-27091800	Weak transcription	Primary neutrophils fromperipheralblood	blood
2	chr10:27071200-27089000	Weak transcription	Lung	lung
3	chr10:27071200-27089600	Weak transcription	Spleen	Spleen
4	chr10:27071400-27088600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr10:27073000-27088200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr10:27074800-27091600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr10:27074800-27091800	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr10:27075000-27089400	Weak transcription	Left Ventricle	heart
9	chr10:27075000-27091600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr10:27075000-27104600	Weak transcription	Esophagus	oesophagus
11	chr10:27075200-27088400	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr10:27079800-27091800	Weak transcription	Fetal Heart	heart
13	chr10:27079800-27092200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr10:27080800-27092000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr10:27082200-27088400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
16	chr10:27082200-27105400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr10:27082600-27091600	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr10:27082600-27094000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr10:27082800-27088400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
20	chr10:27083600-27089800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr10:27083600-27094800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr10:27085000-27088400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
23	chr10:27085200-27088400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
24	chr10:27085600-27119000	Weak transcription	Fetal Lung	lung
25	chr10:27085800-27088200	Weak transcription	Primary hematopoietic stem cells	blood
26	chr10:27085800-27095600	Enhancers	Primary B cells from peripheral blood	blood
27	chr10:27086000-27090400	Weak transcription	Cortex derived primary cultured neurospheres	brain
28	chr10:27086000-27093400	Weak transcription	Fetal Intestine Small	intestine
29	chr10:27086200-27096600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
30	chr10:27086400-27088000	Enhancers	Brain Anterior Caudate	brain
31	chr10:27086400-27088200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr10:27086400-27088400	Enhancers	Brain Cingulate Gyrus	brain
33	chr10:27086600-27089200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
34	chr10:27086600-27089600	Enhancers	Primary T helper cells PMA-I stimulated	--
35	chr10:27086600-27110400	Weak transcription	Fetal Intestine Large	intestine
36	chr10:27086800-27088200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr10:27086800-27089400	Enhancers	Primary T helper cells fromperipheralblood	blood
38	chr10:27086800-27092000	Weak transcription	A549	lung
39	chr10:27087000-27088000	Enhancers	Thymus	Thymus
40	chr10:27087000-27088000	Strong transcription	Monocytes-CD14+_RO01746	blood
41	chr10:27087000-27088600	Enhancers	Brain Substantia Nigra	brain
42	chr10:27087000-27089400	Enhancers	Primary T helper naive cells from peripheral blood	blood
43	chr10:27087000-27097000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
44	chr10:27087200-27089800	Enhancers	Dnd41	blood
45	chr10:27087200-27094400	Weak transcription	Aorta	Aorta
46	chr10:27087200-27096800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
47	chr10:27087400-27088600	Enhancers	Brain Angular Gyrus	brain
48	chr10:27087400-27088600	Enhancers	Brain Germinal Matrix	brain
49	chr10:27087400-27089600	Weak transcription	Brain Hippocampus Middle	brain
50	chr10:27087600-27088400	Enhancers	Primary T cells from cord blood	blood

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