Variant report

Variant	rs10089169
Chromosome Location	chr8:87504010-87504011
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr8:87499255..87503133-chr8:87503921..87506529,4	MCF-7	breast:
2	chr8:87502791..87504446-chr8:87504955..87507786,2	MCF-7	breast:
3	chr8:87502703..87505600-chr8:87516765..87518527,2	MCF-7	breast:
4	chr8:87501630..87504632-chr8:87506781..87509503,3	K562	blood:
5	chr8:87497232..87499719-chr8:87502302..87504012,2	K562	blood:
6	chr8:87502696..87504494-chr8:87508496..87510024,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000176623	Chromatin interaction

Extended variants
information (count: 125 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:121)

rs_ID	r²[population]
rs10086188	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs10089253	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10089317	0.84[EUR][1000 genomes]
rs10090898	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]
rs10090963	0.88[ASN][1000 genomes]
rs10092168	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs10093867	0.82[EUR][1000 genomes]
rs10094332	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10095589	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs10097546	0.82[EUR][1000 genomes]
rs10097866	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10098365	0.85[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs10100182	0.97[ASN][1000 genomes]
rs10100247	0.88[ASN][1000 genomes]
rs10100254	1.00[ASN][1000 genomes]
rs10100368	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10100698	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs10106390	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs10107117	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs10107571	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs10108586	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10109677	0.82[EUR][1000 genomes]
rs10110096	0.97[ASN][1000 genomes]
rs10110323	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10481195	0.90[ASN][1000 genomes]
rs10504823	0.84[EUR][1000 genomes]
rs10956820	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs10956821	0.84[EUR][1000 genomes]
rs10956822	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs10956871	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs11774253	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11774499	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs11776698	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11781993	0.82[EUR][1000 genomes]
rs11783382	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11984519	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11986423	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11994508	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11997927	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11998558	0.90[ASN][1000 genomes]
rs12155979	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12155981	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.84[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]
rs1595207	0.91[CEU][hapmap]
rs16915375	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs16915389	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs17681534	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs17681826	1.00[CEU][hapmap];0.82[JPT][hapmap];0.85[EUR][1000 genomes]
rs2118070	0.84[CEU][hapmap]
rs28384362	0.88[EUR][1000 genomes]
rs28397606	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28416254	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28433311	0.83[EUR][1000 genomes]
rs28438974	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28504479	0.82[EUR][1000 genomes]
rs28514445	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28540009	0.88[ASN][1000 genomes]
rs28613262	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28680173	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs28687116	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28715255	0.85[EUR][1000 genomes]
rs2917559	0.91[CEU][hapmap]
rs2953512	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2953514	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2953515	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2953518	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2953523	0.92[CEU][hapmap]
rs2953524	0.91[CEU][hapmap]
rs2976176	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2976180	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2976194	0.84[EUR][1000 genomes]
rs3087641	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4440616	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4633041	0.92[CEU][hapmap]
rs55671538	0.83[EUR][1000 genomes]
rs55871514	0.87[EUR][1000 genomes]
rs57638937	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs58837061	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6471266	0.91[CEU][hapmap]
rs6471295	0.82[EUR][1000 genomes]
rs6471317	0.87[EUR][1000 genomes]
rs6651177	0.88[ASN][1000 genomes]
rs6651268	0.88[ASN][1000 genomes]
rs67332431	0.97[ASN][1000 genomes]
rs6980476	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs6992624	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6993497	0.87[EUR][1000 genomes]
rs6993612	0.85[EUR][1000 genomes]
rs7015772	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs7018083	0.89[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs72690416	0.97[ASN][1000 genomes]
rs72690443	0.88[ASN][1000 genomes]
rs72690445	0.88[ASN][1000 genomes]
rs72690447	0.88[ASN][1000 genomes]
rs72690455	0.88[ASN][1000 genomes]
rs72690457	0.88[ASN][1000 genomes]
rs72690474	0.88[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	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73688857	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73688858	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73688859	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73688862	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7818436	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7823951	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs7824873	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7833201	0.89[AFR][1000 genomes];0.84[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];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes]
rs7844014	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs9297913	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9650128	0.88[ASN][1000 genomes]
rs9650129	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[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
rs10089169	FAM82B	Cis_1M	lymphoblastoid	RTeQTL
rs10089169	FAM82B///LOC642197	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:87441800-87507600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr8:87457400-87507400	Weak transcription	Brain Angular Gyrus	brain
3	chr8:87474000-87517000	Weak transcription	Small Intestine	intestine
4	chr8:87481800-87507400	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr8:87481800-87507600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr8:87481800-87507600	Weak transcription	Esophagus	oesophagus
7	chr8:87482000-87507600	Weak transcription	Fetal Brain Male	brain
8	chr8:87482000-87508200	Weak transcription	Fetal Heart	heart
9	chr8:87482000-87508400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr8:87482200-87507600	Weak transcription	Colonic Mucosa	Colon
11	chr8:87482400-87517000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr8:87482800-87506600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr8:87482800-87519600	Weak transcription	HUVEC	blood vessel
14	chr8:87483000-87508400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr8:87483200-87505400	Weak transcription	Hela-S3	cervix
16	chr8:87487600-87507400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr8:87488200-87507400	Weak transcription	Colon Smooth Muscle	Colon
18	chr8:87488200-87507600	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr8:87488400-87519800	Weak transcription	Psoas Muscle	Psoas
20	chr8:87488800-87505400	Weak transcription	Stomach Mucosa	stomach
21	chr8:87490400-87507400	Weak transcription	HSMMtube	muscle
22	chr8:87491200-87507600	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr8:87493800-87508000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
24	chr8:87494200-87519800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
25	chr8:87495200-87506200	Weak transcription	Left Ventricle	heart
26	chr8:87495200-87506400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr8:87495200-87506800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr8:87495200-87506800	Weak transcription	Fetal Brain Female	brain
29	chr8:87495200-87507200	Weak transcription	Pancreas	Pancrea
30	chr8:87495200-87507400	Weak transcription	Aorta	Aorta
31	chr8:87495200-87507600	Weak transcription	Brain Cingulate Gyrus	brain
32	chr8:87495400-87506400	Weak transcription	Cortex derived primary cultured neurospheres	brain
33	chr8:87495400-87507400	Weak transcription	Brain Hippocampus Middle	brain
34	chr8:87495600-87507600	Weak transcription	HepG2	liver
35	chr8:87495800-87507600	Weak transcription	K562	blood
36	chr8:87496600-87506600	Weak transcription	Lung	lung
37	chr8:87496600-87507400	Weak transcription	Skeletal Muscle Male	skeletal muscle
38	chr8:87496600-87507600	Weak transcription	Brain Substantia Nigra	brain
39	chr8:87496600-87507800	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr8:87496600-87515800	Weak transcription	NHLF	lung
41	chr8:87496800-87504600	Strong transcription	Primary monocytes fromperipheralblood	blood
42	chr8:87496800-87505600	Weak transcription	HMEC	breast
43	chr8:87496800-87506600	Weak transcription	Thymus	Thymus
44	chr8:87496800-87507400	Weak transcription	Ovary	ovary
45	chr8:87496800-87507800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
46	chr8:87496800-87507800	Weak transcription	Spleen	Spleen
47	chr8:87497000-87506200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr8:87497000-87516000	Weak transcription	Gastric	stomach
49	chr8:87497000-87516600	Weak transcription	Right Ventricle	heart
50	chr8:87497400-87507000	Weak transcription	Brain Germinal Matrix	brain

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