Variant report

Variant	rs10783058
Chromosome Location	chr1:97761972-97761973
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10735793	0.80[ASN][1000 genomes]
rs10783057	0.93[ASW][hapmap];0.85[CEU][hapmap];0.82[CHB][hapmap];0.87[CHD][hapmap];0.90[GIH][hapmap];0.93[JPT][hapmap];1.00[LWK][hapmap];0.84[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10875061	0.86[ASW][hapmap];0.85[CEU][hapmap];0.82[CHB][hapmap];0.84[CHD][hapmap];0.90[GIH][hapmap];0.93[JPT][hapmap];1.00[LWK][hapmap];0.84[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10875062	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[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];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10875064	0.86[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.95[TSI][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10875069	0.84[CEU][hapmap]
rs11165826	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11165827	0.87[CEU][hapmap];1.00[JPT][hapmap];0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11165829	0.85[CEU][hapmap];0.82[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11165837	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12024830	1.00[CEU][hapmap];0.88[CHB][hapmap];0.87[GIH][hapmap];0.87[JPT][hapmap];1.00[TSI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12726453	0.81[JPT][hapmap];0.80[ASN][1000 genomes]
rs1402258	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1589342	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1589343	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1610253	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2090763	0.86[ASW][hapmap];0.85[CEU][hapmap];0.82[CHB][hapmap];0.84[CHD][hapmap];0.90[GIH][hapmap];0.93[JPT][hapmap];1.00[LWK][hapmap];0.84[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28483122	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28595744	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4266934	0.81[JPT][hapmap]
rs4285754	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4950026	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs519852	0.80[ASN][1000 genomes]
rs528455	0.81[JPT][hapmap];0.80[ASN][1000 genomes]
rs552926	0.81[JPT][hapmap];0.80[ASN][1000 genomes]
rs638456	0.80[ASN][1000 genomes]
rs640711	0.80[ASN][1000 genomes]
rs6593640	0.80[ASN][1000 genomes]
rs6593641	0.80[ASN][1000 genomes]
rs6593642	0.81[JPT][hapmap];0.80[ASN][1000 genomes]
rs667565	0.81[JPT][hapmap];0.80[ASN][1000 genomes]
rs6689930	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6700920	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72726681	0.80[ASN][1000 genomes]
rs7512040	0.84[ASW][hapmap];0.89[CEU][hapmap];0.96[LWK][hapmap];0.89[MEX][hapmap];0.98[MKK][hapmap];0.91[YRI][hapmap];0.84[AFR][1000 genomes]
rs7522938	0.80[ASW][hapmap];0.85[CEU][hapmap];0.82[CHB][hapmap];0.87[CHD][hapmap];0.90[GIH][hapmap];0.93[JPT][hapmap];1.00[LWK][hapmap];0.85[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7539889	1.00[LWK][hapmap]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv491816	chr1:97266403-98223619	Enhancers Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv530048	chr1:97457175-98031501	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1007950	chr1:97466488-98021146	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv533039	chr1:97665736-98343102	ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv470728	chr1:97703325-97761972	Enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv546864	chr1:97744048-97764073	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS	n/a	n/a	inside rSNPs	diseases
7	nsv871536	chr1:97744048-97771947	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases
8	nsv869751	chr1:97749598-97790476	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases
9	esv3366854	chr1:97760364-97763662	Weak transcription Strong transcription Enhancers	n/a	n/a	inside rSNPs	diseases
10	esv3446382	chr1:97760814-97763512	Strong transcription Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:97720600-97772000	Weak transcription	Ovary	ovary
2	chr1:97724000-97773200	Weak transcription	Lung	lung
3	chr1:97730400-97769800	Weak transcription	Primary B cells from cord blood	blood
4	chr1:97733600-97769800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr1:97736800-97771600	Weak transcription	Left Ventricle	heart
6	chr1:97737800-97771600	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr1:97738800-97766200	Weak transcription	Adipose Nuclei	Adipose
8	chr1:97743800-97769800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
9	chr1:97745000-97773400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr1:97745200-97771800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr1:97745200-97773400	Weak transcription	NHDF-Ad	bronchial
12	chr1:97745800-97769800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr1:97746000-97770600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr1:97750600-97770000	Weak transcription	HSMM	muscle
15	chr1:97750800-97770000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr1:97753400-97773200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr1:97754000-97762200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr1:97754200-97773200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr1:97756000-97772400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
20	chr1:97756800-97773200	Weak transcription	Small Intestine	intestine
21	chr1:97757600-97762000	Strong transcription	Liver	Liver
22	chr1:97757800-97763000	Weak transcription	Primary neutrophils fromperipheralblood	blood
23	chr1:97757800-97773200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
24	chr1:97757800-97773800	Weak transcription	Osteobl	bone
25	chr1:97758000-97770400	Weak transcription	Primary T helper cells PMA-I stimulated	--
26	chr1:97758200-97771600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
27	chr1:97758400-97765000	Weak transcription	Fetal Brain Male	brain
28	chr1:97759200-97771600	Weak transcription	Primary hematopoietic stem cells	blood
29	chr1:97759200-97772200	Strong transcription	Monocytes-CD14+_RO01746	blood
30	chr1:97759600-97771400	Weak transcription	Fetal Intestine Small	intestine
31	chr1:97759800-97776000	Weak transcription	Pancreas	Pancrea
32	chr1:97760000-97770600	Weak transcription	Aorta	Aorta
33	chr1:97760000-97772600	Weak transcription	Thymus	Thymus
34	chr1:97760200-97772600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr1:97760400-97769800	Weak transcription	Dnd41	blood
36	chr1:97760800-97770000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr1:97761000-97769600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
38	chr1:97761400-97770200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
39	chr1:97761600-97769600	Weak transcription	Primary T cells from cord blood	blood
40	chr1:97761600-97769600	Weak transcription	Primary T helper cells fromperipheralblood	blood
41	chr1:97761600-97769800	Weak transcription	Primary T cells fromperipheralblood	blood
42	chr1:97761800-97763000	Weak transcription	Primary monocytes fromperipheralblood	blood

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