Variant report

Variant	rs806694
Chromosome Location	chr10:90175462-90175463
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:90168585..90170289-chr10:90173744..90175813,2	MCF-7	breast:

Extended variants
information (count: 84 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:78)

rs_ID	r²[population]
rs1067839	1.00[CEU][hapmap];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1067840	1.00[CEU][hapmap];0.81[JPT][hapmap];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10736351	1.00[CEU][hapmap];0.86[JPT][hapmap];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10736352	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10736354	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10749589	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10749590	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10749591	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10788598	1.00[CEU][hapmap];0.99[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10788599	1.00[CEU][hapmap];0.99[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10788600	1.00[CEU][hapmap];0.99[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10788602	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10887813	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10887817	0.89[CEU][hapmap];0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs10887818	0.89[CEU][hapmap];0.87[CHB][hapmap];0.82[JPT][hapmap];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10887821	1.00[CEU][hapmap];0.99[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10887823	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10887824	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1169043	0.93[AMR][1000 genomes]
rs1342450	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1342451	0.89[CEU][hapmap];0.88[CHB][hapmap];0.83[JPT][hapmap];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1342456	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1617881	0.89[CEU][hapmap];0.87[CHB][hapmap];0.83[JPT][hapmap];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1750274	0.96[CEU][hapmap];0.93[AMR][1000 genomes]
rs1935579	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1935584	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2096194	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2185786	0.96[CEU][hapmap];0.93[AMR][1000 genomes]
rs2312610	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2433340	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2437875	0.82[CEU][hapmap];0.89[AMR][1000 genomes]
rs2477954	0.89[AMR][1000 genomes]
rs2477956	0.96[CEU][hapmap];0.90[AMR][1000 genomes]
rs2488270	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2576169	0.89[AMR][1000 genomes]
rs2576170	0.82[CEU][hapmap];0.89[AMR][1000 genomes]
rs2576171	0.82[CEU][hapmap];0.89[AMR][1000 genomes]
rs2576172	0.81[CEU][hapmap];0.89[AMR][1000 genomes]
rs2576176	0.80[CEU][hapmap]
rs2576181	0.96[CEU][hapmap];0.90[AMR][1000 genomes]
rs2872092	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4509673	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4596981	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4606392	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4619060	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4933480	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4934403	0.89[CEU][hapmap];0.83[CHB][hapmap];0.83[JPT][hapmap];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4934404	1.00[CEU][hapmap];0.99[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4934409	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4934411	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6586132	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6586134	0.89[CEU][hapmap]
rs6586139	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7899828	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7907732	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7909697	1.00[CEU][hapmap];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7910594	0.92[CEU][hapmap];0.99[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7911996	1.00[CEU][hapmap];0.99[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7918921	0.89[CEU][hapmap];0.87[CHB][hapmap];0.82[JPT][hapmap];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7921352	0.96[CEU][hapmap];0.97[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs792205	0.89[CEU][hapmap];0.88[CHB][hapmap];0.83[JPT][hapmap];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs792207	0.89[CEU][hapmap];0.85[JPT][hapmap];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs792208	1.00[CEU][hapmap];0.87[JPT][hapmap];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs792209	0.89[CEU][hapmap];0.83[JPT][hapmap];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs792211	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs792212	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs792213	0.89[CEU][hapmap];0.82[JPT][hapmap];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs792214	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs792215	1.00[CEU][hapmap];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs792230	0.89[CEU][hapmap];0.88[CHB][hapmap];0.83[JPT][hapmap];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs792234	0.89[CEU][hapmap];0.86[JPT][hapmap];0.81[EUR][1000 genomes]
rs792235	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs792236	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7922551	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs796945	0.84[CEU][hapmap];0.81[JPT][hapmap]
rs811558	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs813782	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs814242	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[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:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90171400-90175800	Enhancers	Primary hematopoietic stem cells short term culture	blood
2	chr10:90171800-90177000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr10:90173200-90175600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr10:90174600-90175800	Enhancers	Skeletal Muscle Male	skeletal muscle
5	chr10:90175000-90175800	Enhancers	Skeletal Muscle Female	skeletal muscle
6	chr10:90175200-90175800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr10:90175200-90175800	Enhancers	iPS-15b Cell Line	embryonic stem cell
8	chr10:90175200-90175800	Enhancers	Fetal Heart	heart
9	chr10:90175400-90175600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr10:90175400-90175600	Enhancers	GM12878-XiMat	blood
11	chr10:90175400-90175800	Enhancers	ES-I3 Cell Line	embryonic stem cell
12	chr10:90175400-90175800	Enhancers	H1 Cell Line	embryonic stem cell
13	chr10:90175400-90175800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr10:90175400-90175800	Enhancers	H9 Cell Line	embryonic stem cell
15	chr10:90175400-90175800	Enhancers	HUES48 Cell Line	embryonic stem cell
16	chr10:90175400-90175800	Enhancers	HUES6 Cell Line	embryonic stem cell
17	chr10:90175400-90175800	Enhancers	HUES64 Cell Line	embryonic stem cell
18	chr10:90175400-90175800	Enhancers	iPS-18 Cell Line	embryonic stem cell
19	chr10:90175400-90175800	Enhancers	iPS-20b Cell Line	embryonic stem cell
20	chr10:90175400-90175800	Enhancers	Primary monocytes fromperipheralblood	blood
21	chr10:90175400-90175800	Enhancers	Fetal Thymus	thymus
22	chr10:90175400-90175800	Enhancers	Psoas Muscle	Psoas
23	chr10:90175400-90176000	Enhancers	Monocytes-CD14+_RO01746	blood
24	chr10:90175400-90177800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr10:90175400-90177800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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