Variant report

Variant	rs10090898
Chromosome Location	chr8:87512026-87512027
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 122 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:118)

rs_ID	r²[population]
rs10086188	0.82[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10089169	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10089253	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10089317	0.84[EUR][1000 genomes]
rs10090963	0.85[ASN][1000 genomes]
rs10092168	0.82[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10093867	0.82[EUR][1000 genomes]
rs10094332	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10095589	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10097546	0.82[EUR][1000 genomes]
rs10097866	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10098365	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10100182	0.94[ASN][1000 genomes]
rs10100247	0.85[ASN][1000 genomes]
rs10100254	0.97[ASN][1000 genomes]
rs10100368	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10100698	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs10106390	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10107117	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10107571	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10108586	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10109677	0.82[EUR][1000 genomes]
rs10110096	0.94[ASN][1000 genomes]
rs10110323	1.00[EUR][1000 genomes]
rs10481195	0.88[ASN][1000 genomes]
rs10504823	0.84[EUR][1000 genomes]
rs10956820	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs10956821	0.84[EUR][1000 genomes]
rs10956822	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs10956871	0.85[ASN][1000 genomes]
rs11774253	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11774499	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs11776698	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11781993	0.82[EUR][1000 genomes]
rs11783382	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11984519	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11986423	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11994508	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11997927	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11998558	0.88[ASN][1000 genomes]
rs12155979	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12155981	1.00[CEU][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12156004	0.83[EUR][1000 genomes]
rs12216783	0.84[EUR][1000 genomes]
rs12335013	0.85[EUR][1000 genomes]
rs13265266	0.81[EUR][1000 genomes]
rs16915375	0.82[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs16915389	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs17681534	1.00[CEU][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs17681826	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs28384362	0.88[EUR][1000 genomes]
rs28397606	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28416254	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28433311	0.83[EUR][1000 genomes]
rs28438974	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28504479	0.82[EUR][1000 genomes]
rs28514445	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28540009	0.85[ASN][1000 genomes]
rs28613262	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28680173	0.90[EUR][1000 genomes]
rs28687116	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28715255	0.85[EUR][1000 genomes]
rs2917559	1.00[CEU][hapmap]
rs2953512	0.88[CEU][hapmap];1.00[JPT][hapmap]
rs2953514	0.90[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs2953515	0.90[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs2953518	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs2953523	1.00[CEU][hapmap]
rs2953524	1.00[CEU][hapmap]
rs2976176	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs2976180	0.90[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs2976194	0.84[EUR][1000 genomes]
rs3087641	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4440616	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs55671538	0.83[EUR][1000 genomes]
rs55871514	0.87[EUR][1000 genomes]
rs57638937	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs58837061	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6471266	1.00[CEU][hapmap]
rs6471295	0.82[EUR][1000 genomes]
rs6471317	0.87[EUR][1000 genomes]
rs6651177	0.85[ASN][1000 genomes]
rs6651268	0.85[ASN][1000 genomes]
rs67332431	0.94[ASN][1000 genomes]
rs6980476	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs6992624	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6993497	0.87[EUR][1000 genomes]
rs6993612	0.85[EUR][1000 genomes]
rs7015772	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs7018083	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs72690416	0.94[ASN][1000 genomes]
rs72690443	0.85[ASN][1000 genomes]
rs72690445	0.85[ASN][1000 genomes]
rs72690447	0.85[ASN][1000 genomes]
rs72690455	0.85[ASN][1000 genomes]
rs72690457	0.85[ASN][1000 genomes]
rs72690474	0.85[ASN][1000 genomes]
rs73688817	0.84[EUR][1000 genomes]
rs73688823	0.82[EUR][1000 genomes]
rs73688824	0.82[EUR][1000 genomes]
rs73688827	0.85[EUR][1000 genomes]
rs73688856	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73688857	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73688858	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73688859	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73688862	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7818436	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7823951	1.00[JPT][hapmap];0.89[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs7824873	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7833201	0.94[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs7837581	0.83[EUR][1000 genomes]
rs7839096	0.82[EUR][1000 genomes]
rs7843272	0.84[EUR][1000 genomes]
rs7843399	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes]
rs7844014	0.82[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs9297913	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9650128	0.85[ASN][1000 genomes]
rs9650129	0.82[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3349873	chr8:87185763-87603726	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv1023510	chr8:87429001-87874948	Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv933966	chr8:87454655-87591558	ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer Enhancers Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv968514	chr8:87495999-87514855	ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS	TF binding region Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10090898	FAM82B	Cis_1M	lymphoblastoid	RTeQTL
rs10090898	FAM82B///LOC642197	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:87474000-87517000	Weak transcription	Small Intestine	intestine
2	chr8:87482400-87517000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr8:87482800-87519600	Weak transcription	HUVEC	blood vessel
4	chr8:87488400-87519800	Weak transcription	Psoas Muscle	Psoas
5	chr8:87494200-87519800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr8:87496600-87515800	Weak transcription	NHLF	lung
7	chr8:87497000-87516000	Weak transcription	Gastric	stomach
8	chr8:87497000-87516600	Weak transcription	Right Ventricle	heart
9	chr8:87498000-87515800	Weak transcription	Fetal Kidney	kidney
10	chr8:87498200-87517200	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr8:87498400-87517400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr8:87498400-87519200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
13	chr8:87506000-87516000	Weak transcription	Hela-S3	cervix
14	chr8:87506600-87520000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr8:87508000-87515600	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr8:87508000-87515800	Weak transcription	Primary T cells fromperipheralblood	blood
17	chr8:87508000-87515800	Weak transcription	Aorta	Aorta
18	chr8:87508000-87515800	Weak transcription	Pancreas	Pancrea
19	chr8:87508000-87516000	Weak transcription	Esophagus	oesophagus
20	chr8:87508000-87516000	Weak transcription	Lung	lung
21	chr8:87508000-87516000	Weak transcription	Ovary	ovary
22	chr8:87508000-87516600	Weak transcription	Rectal Smooth Muscle	rectum
23	chr8:87508000-87516600	Weak transcription	NH-A	brain
24	chr8:87508000-87520200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr8:87508200-87515600	Weak transcription	Fetal Thymus	thymus
26	chr8:87508200-87516000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
27	chr8:87508200-87516000	Weak transcription	Colonic Mucosa	Colon
28	chr8:87508200-87517000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr8:87508200-87520000	Weak transcription	Stomach Mucosa	stomach
30	chr8:87508400-87515800	Weak transcription	Placenta	Placenta
31	chr8:87508600-87515800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr8:87508600-87515800	Weak transcription	Brain Anterior Caudate	brain
33	chr8:87508600-87515800	Weak transcription	Brain Cingulate Gyrus	brain
34	chr8:87508600-87515800	Weak transcription	Rectal Mucosa Donor 29	rectum
35	chr8:87508600-87515800	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr8:87508600-87516000	Weak transcription	Skeletal Muscle Male	skeletal muscle
37	chr8:87508600-87516400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
38	chr8:87508600-87517400	Weak transcription	Fetal Heart	heart
39	chr8:87508800-87513000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr8:87508800-87515800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
41	chr8:87508800-87515800	Weak transcription	HUES6 Cell Line	embryonic stem cell
42	chr8:87508800-87515800	Weak transcription	Liver	Liver
43	chr8:87508800-87516200	Weak transcription	H1 Cell Line	embryonic stem cell
44	chr8:87508800-87516600	Weak transcription	NHDF-Ad	bronchial
45	chr8:87509000-87514600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr8:87509000-87515400	Weak transcription	NHEK	skin
47	chr8:87509000-87515800	Weak transcription	Primary T helper cells PMA-I stimulated	--
48	chr8:87509000-87515800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr8:87509000-87515800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
50	chr8:87509000-87515800	Weak transcription	Brain Substantia Nigra	brain

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