Variant report

Variant	rs10875091
Chromosome Location	chr1:97938684-97938685
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10449723	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10747482	0.93[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];0.82[CHD][hapmap];0.91[GIH][hapmap];0.91[MEX][hapmap];0.95[MKK][hapmap];0.95[TSI][hapmap];0.96[YRI][hapmap];0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10783063	0.93[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];0.82[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];0.95[TSI][hapmap];0.96[YRI][hapmap];0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10783065	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs10783066	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10783067	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10783068	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.91[GIH][hapmap];0.95[LWK][hapmap];0.91[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10875089	0.93[ASW][hapmap];0.91[CEU][hapmap];0.94[GIH][hapmap];0.91[MEX][hapmap];0.88[MKK][hapmap];0.92[YRI][hapmap];0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11165880	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.91[GIH][hapmap];0.91[MEX][hapmap];0.89[MKK][hapmap];0.95[TSI][hapmap];0.96[YRI][hapmap];0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1415681	0.93[ASW][hapmap];0.91[CEU][hapmap];0.86[GIH][hapmap];0.87[LWK][hapmap];0.91[MEX][hapmap];0.80[MKK][hapmap];0.82[YRI][hapmap];0.82[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs1538175	1.00[CEU][hapmap];0.86[JPT][hapmap];0.96[YRI][hapmap];0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1556798	1.00[ASW][hapmap];0.91[CEU][hapmap];0.83[GIH][hapmap];0.92[LWK][hapmap];0.91[MEX][hapmap];0.95[MKK][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs2039676	1.00[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];0.82[CHD][hapmap];1.00[GIH][hapmap];0.92[LWK][hapmap];0.91[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4353133	0.86[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];0.82[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap]
rs4431878	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4451581	0.86[ASW][hapmap];0.90[CHB][hapmap];0.91[GIH][hapmap];0.91[MEX][hapmap];0.86[TSI][hapmap];0.85[AMR][1000 genomes]
rs4495745	1.00[CHB][hapmap];0.87[GIH][hapmap];0.91[MEX][hapmap]
rs4604729	0.85[AMR][1000 genomes]
rs6593648	1.00[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];0.82[CHD][hapmap];1.00[GIH][hapmap];0.92[LWK][hapmap];0.91[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6593649	1.00[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];0.82[CHD][hapmap];1.00[GIH][hapmap];0.92[LWK][hapmap];0.91[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7513650	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7517433	0.93[ASW][hapmap];0.90[CEU][hapmap];0.94[GIH][hapmap];0.87[LWK][hapmap];0.84[MEX][hapmap];0.82[MKK][hapmap];0.82[YRI][hapmap];0.82[AFR][1000 genomes]
rs7523116	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.91[GIH][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7549538	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs950467	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs952856	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[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	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	nsv530049	chr1:97883261-98384614	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
6	nsv830703	chr1:97907708-98101144	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:97872600-98014600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr1:97898800-97960000	Weak transcription	Left Ventricle	heart
3	chr1:97904200-97946800	Weak transcription	Primary T cells fromperipheralblood	blood
4	chr1:97909200-97940600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
5	chr1:97910000-97954000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr1:97911200-97940600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr1:97928600-98018200	Weak transcription	Ovary	ovary
8	chr1:97928800-97943600	Weak transcription	Brain Angular Gyrus	brain
9	chr1:97930400-97955400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr1:97930600-97942200	Weak transcription	HSMM	muscle
11	chr1:97930600-97943000	Weak transcription	Esophagus	oesophagus
12	chr1:97930600-97979200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
13	chr1:97930800-97946600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr1:97932200-97943600	Weak transcription	Primary hematopoietic stem cells	blood
15	chr1:97933000-97943800	Weak transcription	Fetal Intestine Small	intestine
16	chr1:97933400-97938800	Weak transcription	Primary monocytes fromperipheralblood	blood
17	chr1:97934400-97940400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
18	chr1:97934400-97943600	Weak transcription	Liver	Liver
19	chr1:97934400-97951800	Weak transcription	Primary B cells from cord blood	blood
20	chr1:97934400-97955600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr1:97934600-97943400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr1:97934600-97943600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr1:97934600-97944200	Weak transcription	Primary T cells from cord blood	blood
24	chr1:97935000-97944400	Weak transcription	Dnd41	blood
25	chr1:97937200-97942800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr1:97937400-97939400	Strong transcription	Monocytes-CD14+_RO01746	blood

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