Variant report

Variant	rs16907083
Chromosome Location	chr9:93762778-93762779
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	chr9:93760587..93764673-chr9:93765338..93768530,4	MCF-7	breast:

Extended variants
information (count: 95 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:93)

rs_ID	r²[population]
rs10123625	1.00[EUR][1000 genomes]
rs1041381	0.85[MEX][hapmap]
rs10512204	0.90[JPT][hapmap];1.00[EUR][1000 genomes]
rs10991749	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1460828	1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1542478	1.00[GIH][hapmap];0.90[JPT][hapmap];1.00[EUR][1000 genomes]
rs1585456	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1585457	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1585458	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1585459	0.86[CHB][hapmap];0.90[JPT][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1675297	0.85[MEX][hapmap]
rs16907076	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16907078	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16907088	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16907095	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16907097	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16907114	0.90[JPT][hapmap];1.00[EUR][1000 genomes]
rs16907129	1.00[EUR][1000 genomes]
rs169743	0.85[MEX][hapmap]
rs1841446	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28406163	1.00[EUR][1000 genomes]
rs28498576	1.00[EUR][1000 genomes]
rs28508244	0.92[ASN][1000 genomes]
rs28548848	1.00[EUR][1000 genomes]
rs28629371	1.00[EUR][1000 genomes]
rs28720686	1.00[EUR][1000 genomes]
rs291759	0.85[MEX][hapmap]
rs296659	0.85[MEX][hapmap]
rs296692	0.85[MEX][hapmap]
rs296727	0.85[MEX][hapmap]
rs296729	0.89[ASN][1000 genomes]
rs364622	0.85[MEX][hapmap]
rs4991707	1.00[EUR][1000 genomes]
rs55796701	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs55837511	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56046303	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56099287	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56215441	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56286690	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs56748053	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs57600683	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs57756037	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs57874603	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs58087771	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs58145618	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs58848158	1.00[EUR][1000 genomes]
rs58968598	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs59262734	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs59306422	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs59874266	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs60129254	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs60691320	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs60805834	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs61300432	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61647505	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6479324	0.90[JPT][hapmap];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6479326	1.00[GIH][hapmap];0.90[JPT][hapmap];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6479327	1.00[GIH][hapmap];0.90[JPT][hapmap];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7020346	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7024221	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7025659	1.00[EUR][1000 genomes]
rs7025935	1.00[GIH][hapmap];0.90[JPT][hapmap];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7032345	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7034744	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7035409	0.86[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7039162	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7039179	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7039199	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7042483	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7047670	0.86[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73492522	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73492530	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73492532	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73492542	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73492545	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73492551	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73505587	1.00[EUR][1000 genomes]
rs73653522	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73653527	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs751279	1.00[GIH][hapmap];0.90[JPT][hapmap];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs753789	0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs753790	0.90[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs753791	0.90[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7852422	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7854907	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7855222	0.86[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7855269	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7856489	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7856691	0.81[JPT][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7859976	0.86[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7867663	0.82[JPT][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7870440	1.00[EUR][1000 genomes]
rs7873869	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046989	chr9:93353987-93800416	Transcr. at gene 5' and 3' Weak transcription Active TSS Strong transcription Enhancers Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv893568	chr9:93539879-93774385	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:93754800-93763400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr9:93755600-93763200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr9:93758800-93762800	Weak transcription	NHDF-Ad	bronchial
4	chr9:93758800-93763600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr9:93760200-93763200	Enhancers	Pancreatic Islets	Pancreatic Islet
6	chr9:93760600-93763400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr9:93760600-93764000	Enhancers	Hela-S3	cervix
8	chr9:93760800-93762800	Enhancers	Placenta	Placenta
9	chr9:93760800-93763000	Enhancers	Adipose Nuclei	Adipose
10	chr9:93760800-93763400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr9:93760800-93763600	Enhancers	Liver	Liver
12	chr9:93760800-93764000	Enhancers	Muscle Satellite Cultured Cells	--
13	chr9:93760800-93764000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr9:93760800-93764200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr9:93760800-93764200	Enhancers	HMEC	breast
16	chr9:93761000-93764000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr9:93761000-93764000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr9:93761200-93763600	Weak transcription	Fetal Muscle Trunk	muscle
19	chr9:93761200-93763800	Enhancers	Breast Myoepithelial Primary Cells	Breast
20	chr9:93761400-93763000	Weak transcription	HUVEC	blood vessel
21	chr9:93762000-93762800	Enhancers	Primary neutrophils fromperipheralblood	blood
22	chr9:93762000-93763200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr9:93762000-93763600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr9:93762200-93763000	Weak transcription	Fetal Thymus	thymus
25	chr9:93762200-93763600	Weak transcription	Aorta	Aorta
26	chr9:93762200-93763800	Weak transcription	Psoas Muscle	Psoas
27	chr9:93762400-93762800	Weak transcription	Osteobl	bone
28	chr9:93762400-93764200	Enhancers	NHEK	skin
29	chr9:93762600-93763600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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