Variant report

Variant	rs11186859
Chromosome Location	chr10:93977809-93977810
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:93976925..93978749-chr10:94049775..94052495,2	MCF-7	breast:
2	chr10:93976217..93977889-chr10:94051487..94052996,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000198060	Chromatin interaction
ENSG00000107864	Chromatin interaction

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10509644	0.84[CHB][hapmap];0.86[JPT][hapmap]
rs1057848	0.83[CHB][hapmap];0.86[JPT][hapmap]
rs10882030	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10882031	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10882037	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10882038	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10882044	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11186839	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11186841	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11186842	0.90[ASN][1000 genomes]
rs11186843	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11186852	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11186856	0.90[CEU][hapmap]
rs11186860	0.91[CEU][hapmap];0.94[CHB][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11186866	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11186867	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11186868	1.00[CEU][hapmap];0.94[CHB][hapmap];0.86[JPT][hapmap];0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11186870	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11186875	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11186876	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11186878	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11186879	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11186880	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11186881	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11186884	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11186888	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11186892	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11186894	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11186895	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11186896	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11186897	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11186898	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11186923	0.83[CHB][hapmap];0.86[JPT][hapmap]
rs11186926	0.83[CHB][hapmap];0.86[JPT][hapmap]
rs12355759	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12358721	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12358765	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12359038	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17107517	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2421831	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28661623	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3781230	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3781231	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56239008	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61875203	0.86[ASN][1000 genomes]
rs61875208	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61875210	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61875221	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6583802	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6583805	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7067935	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7071524	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7073862	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7074059	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7088903	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72807264	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs746842	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7905301	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9787608	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv975763	chr10:93822289-94105956	Enhancers Bivalent Enhancer Strong transcription Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	nsv1046258	chr10:93866969-94466106	Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
3	esv2761614	chr10:93960695-93981177	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:93926800-93982400	Weak transcription	HSMMtube	muscle
2	chr10:93927200-93980400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr10:93927400-93997800	Weak transcription	Fetal Intestine Large	intestine
4	chr10:93929200-93984800	Weak transcription	Fetal Intestine Small	intestine
5	chr10:93958400-93981000	Weak transcription	Psoas Muscle	Psoas
6	chr10:93959000-93985800	Weak transcription	Brain Substantia Nigra	brain
7	chr10:93961000-93990800	Weak transcription	Spleen	Spleen
8	chr10:93964200-93993000	Weak transcription	Fetal Brain Female	brain
9	chr10:93964200-93996000	Weak transcription	Brain Germinal Matrix	brain
10	chr10:93964200-93997600	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr10:93964400-93982400	Weak transcription	HSMM	muscle
12	chr10:93966400-93986200	Weak transcription	Ovary	ovary
13	chr10:93967400-93986200	Weak transcription	Fetal Heart	heart
14	chr10:93967600-93986200	Weak transcription	Left Ventricle	heart
15	chr10:93967600-93990800	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr10:93968400-93997000	Weak transcription	Primary neutrophils fromperipheralblood	blood
17	chr10:93968600-93989200	Weak transcription	Skeletal Muscle Female	skeletal muscle
18	chr10:93968800-93978000	Weak transcription	Colon Smooth Muscle	Colon
19	chr10:93968800-93979400	Weak transcription	Skeletal Muscle Male	skeletal muscle
20	chr10:93969200-93982400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr10:93969200-93997800	Weak transcription	Pancreas	Pancrea
22	chr10:93969200-93998600	Weak transcription	Lung	lung
23	chr10:93969600-93997800	Weak transcription	Esophagus	oesophagus
24	chr10:93971000-93990800	Weak transcription	Duodenum Mucosa	Duodenum
25	chr10:93971200-93979000	Weak transcription	NHEK	skin
26	chr10:93971200-93980400	Weak transcription	Brain Cingulate Gyrus	brain
27	chr10:93971200-93982600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr10:93971200-93984200	Weak transcription	Rectal Mucosa Donor 29	rectum
29	chr10:93971200-93990400	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr10:93971400-93980400	Weak transcription	Brain Angular Gyrus	brain
31	chr10:93971400-93982400	Weak transcription	Muscle Satellite Cultured Cells	--
32	chr10:93971400-93982600	Weak transcription	Osteobl	bone
33	chr10:93971400-93993200	Weak transcription	Fetal Muscle Leg	muscle
34	chr10:93971400-93997800	Weak transcription	Stomach Mucosa	stomach
35	chr10:93971600-93980600	Weak transcription	Brain Inferior Temporal Lobe	brain
36	chr10:93971600-93982000	Weak transcription	HMEC	breast
37	chr10:93971600-93982400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr10:93971600-93988000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr10:93971600-93989000	Weak transcription	Primary B cells from peripheral blood	blood
40	chr10:93971600-93997000	Weak transcription	Adipose Nuclei	Adipose
41	chr10:93973000-93982200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr10:93973000-93997000	Weak transcription	Liver	Liver
43	chr10:93974200-93978200	Weak transcription	GM12878-XiMat	blood
44	chr10:93974800-93991600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
45	chr10:93975400-93998000	Weak transcription	Colonic Mucosa	Colon
46	chr10:93975600-93997000	Weak transcription	HepG2	liver
47	chr10:93976600-93980400	Weak transcription	Monocytes-CD14+_RO01746	blood
48	chr10:93976600-93999000	Weak transcription	Aorta	Aorta
49	chr10:93976800-93979000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
50	chr10:93976800-93980200	Weak transcription	Primary monocytes fromperipheralblood	blood

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