Variant report

Variant	rs10509550
Chromosome Location	chr10:90219298-90219299
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10509547	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[YRI][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10509548	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[LWK][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10509549	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.96[TSI][hapmap];0.87[YRI][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10736359	0.81[ASW][hapmap];0.95[CEU][hapmap]
rs10736360	0.82[CEU][hapmap]
rs10788590	1.00[CHB][hapmap]
rs1169042	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11816967	0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1237989	1.00[ASN][1000 genomes]
rs1325899	0.90[CEU][hapmap]
rs1325901	0.95[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1325904	0.95[CEU][hapmap]
rs1342457	1.00[ASW][hapmap];0.95[CEU][hapmap];0.85[GIH][hapmap];0.81[TSI][hapmap];0.87[YRI][hapmap];0.95[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1359581	0.94[CEU][hapmap]
rs1359582	0.90[CEU][hapmap]
rs1409136	0.82[CEU][hapmap]
rs1555839	0.85[CEU][hapmap]
rs1573074	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17334741	0.87[CEU][hapmap];1.00[CHB][hapmap];0.93[GIH][hapmap];0.86[TSI][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17336288	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[YRI][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17426488	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1774977	0.87[CEU][hapmap];1.00[CHB][hapmap];0.93[GIH][hapmap];0.86[TSI][hapmap];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1974053	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1980813	0.82[CEU][hapmap]
rs2437876	0.90[CEU][hapmap];0.87[YRI][hapmap]
rs2477953	0.95[CEU][hapmap];0.87[YRI][hapmap];0.95[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2576155	0.81[CEU][hapmap]
rs2576158	0.95[CEU][hapmap]
rs2576162	0.90[CEU][hapmap]
rs2576163	0.89[CEU][hapmap]
rs2576167	0.82[CEU][hapmap]
rs2576173	0.95[CEU][hapmap];0.87[YRI][hapmap];0.95[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2576175	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2576177	0.95[CEU][hapmap];0.85[YRI][hapmap]
rs2765451	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2765453	0.90[CEU][hapmap]
rs2765457	1.00[ASW][hapmap];0.95[CEU][hapmap];0.85[GIH][hapmap];0.85[TSI][hapmap];0.87[YRI][hapmap];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs303516	1.00[ASN][1000 genomes]
rs303517	1.00[ASN][1000 genomes]
rs55713122	1.00[ASN][1000 genomes]
rs57260181	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61852496	1.00[ASN][1000 genomes]
rs61852497	1.00[ASN][1000 genomes]
rs792201	0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs792202	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs792203	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs792216	1.00[ASN][1000 genomes]
rs792231	0.90[CEU][hapmap];1.00[CHB][hapmap];0.93[GIH][hapmap];0.96[TSI][hapmap];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs814617	1.00[ASN][1000 genomes]
rs814619	1.00[ASN][1000 genomes]
rs875050	0.82[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 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
7	nsv529324	chr10:90198865-90738588	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90193800-90227600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr10:90216400-90220200	Weak transcription	Psoas Muscle	Psoas
3	chr10:90216800-90227400	Weak transcription	Ovary	ovary
4	chr10:90217200-90219600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr10:90217800-90220000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr10:90218000-90220600	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr10:90218400-90220600	Weak transcription	Right Atrium	heart
8	chr10:90218400-90226200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr10:90218600-90219800	Weak transcription	Primary monocytes fromperipheralblood	blood
10	chr10:90218600-90219800	Weak transcription	Monocytes-CD14+_RO01746	blood
11	chr10:90219000-90219800	Enhancers	Liver	Liver
12	chr10:90219000-90219800	Enhancers	Skeletal Muscle Female	skeletal muscle
13	chr10:90219200-90219600	Active TSS	Pancreatic Islets	Pancreatic Islet

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