Variant report

Variant	rs1067840
Chromosome Location	chr10:90152140-90152141
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	chr10:89619905..89627532-chr10:90145841..90152433,14	MCF-7	breast:
2	chr10:89618790..89627859-chr10:90143252..90153362,36	MCF-7	breast:

Variant related genes	Relation type
ENSG00000227268	Chromatin interaction
ENSG00000171862	Chromatin interaction

Extended variants
information (count: 86 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs1067839	1.00[CEU][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10736351	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10736352	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10736354	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10749589	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10749590	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10749591	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10788598	1.00[ASW][hapmap];1.00[CEU][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10788599	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10788600	1.00[CEU][hapmap];0.91[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10788602	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10887813	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10887817	0.89[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10887818	0.89[CEU][hapmap];0.86[CHD][hapmap]
rs10887821	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10887823	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10887824	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11202734	0.83[YRI][hapmap]
rs1169043	0.94[AMR][1000 genomes]
rs12217988	0.90[LWK][hapmap];0.83[YRI][hapmap]
rs1342450	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1342451	0.89[CEU][hapmap];0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1342456	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1613409	0.83[YRI][hapmap]
rs1617881	0.89[CEU][hapmap];0.80[ASN][1000 genomes]
rs1750274	0.96[CEU][hapmap];0.94[AMR][1000 genomes]
rs1774971	0.83[YRI][hapmap]
rs1935579	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1935584	0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2096194	1.00[CEU][hapmap];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2185786	0.96[CEU][hapmap];0.94[AMR][1000 genomes]
rs2312610	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2433340	1.00[CEU][hapmap];0.86[CHD][hapmap];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2437875	0.81[CEU][hapmap];0.90[AMR][1000 genomes]
rs2477954	0.90[AMR][1000 genomes]
rs2477956	0.96[CEU][hapmap];0.91[AMR][1000 genomes]
rs2576169	0.90[AMR][1000 genomes]
rs2576170	0.81[CEU][hapmap];0.90[AMR][1000 genomes]
rs2576171	0.81[CEU][hapmap];0.90[AMR][1000 genomes]
rs2576172	0.81[CEU][hapmap];0.90[AMR][1000 genomes]
rs2576181	0.96[CEU][hapmap];0.91[AMR][1000 genomes]
rs2872092	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4509673	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4596981	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4606392	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4619060	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4933480	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4934403	0.89[CEU][hapmap]
rs4934404	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4934409	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4934411	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6586132	1.00[CEU][hapmap];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6586134	0.89[CEU][hapmap]
rs6586139	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7097606	0.81[LWK][hapmap];0.83[YRI][hapmap]
rs7899828	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7907732	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7909697	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7910594	0.92[CEU][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7911996	1.00[CEU][hapmap];0.90[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7918921	0.89[CEU][hapmap];0.86[CHD][hapmap]
rs7921352	1.00[ASW][hapmap];0.96[CEU][hapmap];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs792205	0.89[CEU][hapmap];0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs792207	0.89[CEU][hapmap];0.91[CHB][hapmap];0.83[CHD][hapmap];0.91[JPT][hapmap];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs792208	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs792209	0.88[CEU][hapmap];0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs792211	0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs792212	0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs792213	0.89[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs792214	0.96[CEU][hapmap];0.87[JPT][hapmap];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs792215	1.00[CEU][hapmap];0.90[YRI][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs792230	0.89[CEU][hapmap];0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs792234	0.88[CEU][hapmap];0.84[AFR][1000 genomes]
rs792235	1.00[CEU][hapmap];0.87[JPT][hapmap];0.91[YRI][hapmap];0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7922551	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs796945	0.83[ASW][hapmap];0.84[CEU][hapmap];0.81[JPT][hapmap];0.83[YRI][hapmap]
rs806694	1.00[CEU][hapmap];0.81[JPT][hapmap];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs811558	0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs813782	0.83[ASW][hapmap];1.00[CEU][hapmap];0.83[CHD][hapmap];0.87[JPT][hapmap];0.83[YRI][hapmap];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs814242	0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895879	chr10:90015725-90219298	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv482385	chr10:90066140-90259751	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv948664	chr10:90076715-90517150	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv1054984	chr10:90122512-90278038	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv1050587	chr10:90146582-90272627	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv540739	chr10:90146582-90272627	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90146800-90155200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr10:90147000-90152400	Enhancers	Primary hematopoietic stem cells short term culture	blood
3	chr10:90147200-90152400	Enhancers	Primary hematopoietic stem cells	blood
4	chr10:90147400-90152600	Enhancers	Primary B cells from cord blood	blood
5	chr10:90147600-90152800	Enhancers	Fetal Thymus	thymus
6	chr10:90147800-90154600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr10:90149000-90152600	Weak transcription	Fetal Heart	heart
8	chr10:90151400-90152400	Enhancers	Primary T killer memory cells from peripheral blood	blood
9	chr10:90151400-90152400	Flanking Active TSS	GM12878-XiMat	blood
10	chr10:90151400-90152600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr10:90151600-90152200	Enhancers	HMEC	breast
12	chr10:90151600-90152400	Enhancers	Breast Myoepithelial Primary Cells	Breast
13	chr10:90151600-90152400	Enhancers	Primary T cells fromperipheralblood	blood
14	chr10:90151600-90152400	Enhancers	Primary T helper naive cells from peripheral blood	blood
15	chr10:90151600-90152400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
16	chr10:90151600-90152400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr10:90151600-90152400	Enhancers	Small Intestine	intestine
18	chr10:90151600-90152400	Flanking Active TSS	Dnd41	blood
19	chr10:90151600-90152600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
20	chr10:90151600-90152600	Enhancers	Thymus	Thymus
21	chr10:90151600-90152800	Enhancers	Primary B cells from peripheral blood	blood
22	chr10:90151800-90152200	Enhancers	iPS-15b Cell Line	embryonic stem cell
23	chr10:90151800-90152200	Flanking Active TSS	Primary T cells from cord blood	blood
24	chr10:90151800-90152200	Flanking Active TSS	Liver	Liver
25	chr10:90151800-90152200	Active TSS	Pancreatic Islets	Pancreatic Islet
26	chr10:90151800-90152200	Enhancers	Stomach Mucosa	stomach
27	chr10:90151800-90152400	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
28	chr10:90151800-90152400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
29	chr10:90151800-90152400	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
30	chr10:90151800-90152400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr10:90152000-90152200	Enhancers	Primary T helper cells fromperipheralblood	blood
32	chr10:90152000-90152200	Flanking Active TSS	Duodenum Mucosa	Duodenum
33	chr10:90152000-90152200	Enhancers	Duodenum Smooth Muscle	Duodenum
34	chr10:90152000-90152200	Enhancers	Fetal Kidney	kidney
35	chr10:90152000-90152200	Enhancers	Fetal Lung	lung
36	chr10:90152000-90152200	Enhancers	Right Atrium	heart
37	chr10:90152000-90152400	Enhancers	Primary monocytes fromperipheralblood	blood
38	chr10:90152000-90152400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
39	chr10:90152000-90152400	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
40	chr10:90152000-90152400	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
41	chr10:90152000-90152400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr10:90152000-90152400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr10:90152000-90152400	Enhancers	Rectal Mucosa Donor 29	rectum
44	chr10:90152000-90152400	Enhancers	Sigmoid Colon	Sigmoid Colon
45	chr10:90152000-90152400	Enhancers	Monocytes-CD14+_RO01746	blood

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