Variant report

Variant	rs4910092
Chromosome Location	chr11:10003622-10003623
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	chr11:10002720..10004321-chr11:10011527..10014066,2	K562	blood:

Extended variants
information (count: 91 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs10160247	0.83[CHB][hapmap];0.81[JPT][hapmap]
rs10160669	0.83[CHB][hapmap];0.81[JPT][hapmap]
rs10500716	0.94[CEU][hapmap];0.94[CHB][hapmap];0.83[CHD][hapmap];0.85[GIH][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10500719	0.83[CHB][hapmap];0.81[JPT][hapmap]
rs10500720	0.84[JPT][hapmap]
rs11042575	0.88[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs11042586	0.94[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs11824183	0.82[ASN][1000 genomes]
rs11825114	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12099014	0.83[ASN][1000 genomes]
rs12287386	0.83[CHB][hapmap];0.81[JPT][hapmap]
rs12574585	0.84[ASN][1000 genomes]
rs12576008	1.00[CEU][hapmap];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12577989	0.82[ASN][1000 genomes]
rs16907318	0.86[ASN][1000 genomes]
rs16907329	0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs16907334	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16907407	0.94[CEU][hapmap];1.00[CHB][hapmap];0.85[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs16907410	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs16907417	0.84[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];0.85[GIH][hapmap];0.81[JPT][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.88[EUR][1000 genomes]
rs16907462	0.82[CHB][hapmap];0.81[JPT][hapmap]
rs16907471	0.83[CHB][hapmap];0.80[JPT][hapmap]
rs16907481	0.83[CHB][hapmap];0.81[CHD][hapmap];0.81[JPT][hapmap];0.93[MEX][hapmap]
rs16907493	0.83[CHB][hapmap];0.81[CHD][hapmap];0.81[JPT][hapmap]
rs16907504	0.83[CHB][hapmap];0.81[JPT][hapmap]
rs16907533	0.83[CHB][hapmap];0.81[JPT][hapmap]
rs2028576	0.83[CHB][hapmap]
rs2278630	0.83[CHB][hapmap];0.81[JPT][hapmap]
rs2278632	0.83[CHB][hapmap];0.81[JPT][hapmap]
rs2278633	0.83[CHB][hapmap];0.83[JPT][hapmap]
rs2278634	0.81[JPT][hapmap]
rs2403261	0.81[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs2403263	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2403267	0.94[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2896513	0.94[CEU][hapmap];0.94[CHB][hapmap];0.84[CHD][hapmap];0.85[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2896514	0.87[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs2896515	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2896517	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3178898	0.83[CHB][hapmap];0.81[JPT][hapmap]
rs4910090	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs4910091	0.89[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs55927206	0.82[ASN][1000 genomes]
rs56850765	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs57017265	0.86[ASN][1000 genomes]
rs57180563	0.82[ASN][1000 genomes]
rs58419649	0.83[ASN][1000 genomes]
rs58687525	0.86[ASN][1000 genomes]
rs59479500	0.81[ASN][1000 genomes]
rs61877009	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs61877010	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs61877012	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61877018	0.81[ASN][1000 genomes]
rs61877040	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61877045	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs67132348	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7103902	0.89[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs7106234	0.94[ASW][hapmap];0.81[CEU][hapmap];0.94[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.87[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs7107302	0.94[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs7107916	0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs7113715	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7114031	0.82[ASN][1000 genomes]
rs7121157	0.91[ASN][1000 genomes]
rs7124925	0.85[JPT][hapmap]
rs7128234	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7128838	0.92[ASN][1000 genomes]
rs7129047	0.83[CHB][hapmap];0.81[JPT][hapmap]
rs7130610	0.94[CHB][hapmap];0.85[JPT][hapmap]
rs713402	0.94[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs721008	0.83[CHB][hapmap];0.81[JPT][hapmap]
rs72855628	0.82[ASN][1000 genomes]
rs72855633	0.83[ASN][1000 genomes]
rs72855635	0.83[ASN][1000 genomes]
rs72855636	0.83[ASN][1000 genomes]
rs72855639	0.83[ASN][1000 genomes]
rs72855643	0.84[ASN][1000 genomes]
rs72855678	0.82[ASN][1000 genomes]
rs7925889	0.94[CHB][hapmap];0.85[JPT][hapmap]
rs7926141	0.84[ASN][1000 genomes]
rs7930920	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7932484	0.87[CHB][hapmap];0.85[JPT][hapmap]
rs7936409	0.82[CHB][hapmap];0.80[JPT][hapmap]
rs7940348	0.82[ASN][1000 genomes]
rs7946649	0.83[CHB][hapmap];0.81[JPT][hapmap]
rs7949164	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7949322	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9645625	0.88[JPT][hapmap]
rs9888170	0.94[CHB][hapmap];0.83[CHD][hapmap];0.85[JPT][hapmap];0.84[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	nsv933855	chr11:9645441-10130519	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv896988	chr11:9912052-10012511	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv896989	chr11:9951968-10059623	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
4	esv1819684	chr11:9973062-10012511	Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4910092	OR10A4	cis	cerebellum	SCAN
rs4910092	BTBD10	cis	parietal	SCAN

Chromatin state (count:89 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9973800-10010600	Weak transcription	Fetal Brain Male	brain
2	chr11:9981000-10020000	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr11:9981200-10004200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr11:9981200-10009200	Weak transcription	Brain Germinal Matrix	brain
5	chr11:9981400-10004200	Weak transcription	Esophagus	oesophagus
6	chr11:9981400-10004200	Weak transcription	Lung	lung
7	chr11:9981400-10004400	Weak transcription	HepG2	liver
8	chr11:9981400-10008800	Weak transcription	Primary T cells from cord blood	blood
9	chr11:9981400-10010200	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr11:9981400-10014800	Weak transcription	Dnd41	blood
11	chr11:9981400-10017000	Weak transcription	Stomach Smooth Muscle	stomach
12	chr11:9981400-10051600	Weak transcription	Aorta	Aorta
13	chr11:9981800-10004800	Weak transcription	Ovary	ovary
14	chr11:9983600-10004800	Weak transcription	Fetal Lung	lung
15	chr11:9983600-10023200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr11:9984600-10010200	Weak transcription	Fetal Kidney	kidney
17	chr11:9985800-10004000	Weak transcription	Placenta	Placenta
18	chr11:9985800-10004200	Weak transcription	Fetal Muscle Leg	muscle
19	chr11:9985800-10004400	Weak transcription	Fetal Muscle Trunk	muscle
20	chr11:9985800-10021600	Weak transcription	Duodenum Smooth Muscle	Duodenum
21	chr11:9985800-10023600	Weak transcription	Primary B cells from cord blood	blood
22	chr11:9985800-10049000	Weak transcription	Left Ventricle	heart
23	chr11:9986000-10006000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr11:9989400-10004000	Weak transcription	Fetal Stomach	stomach
25	chr11:9990000-10004800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr11:9990000-10012600	Weak transcription	Liver	Liver
27	chr11:9990000-10018200	Weak transcription	Rectal Mucosa Donor 29	rectum
28	chr11:9990200-10006200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr11:9990400-10028200	Weak transcription	Fetal Brain Female	brain
30	chr11:9990600-10003800	Weak transcription	Cortex derived primary cultured neurospheres	brain
31	chr11:9991200-10060000	Weak transcription	Colon Smooth Muscle	Colon
32	chr11:9994800-10041800	Weak transcription	Rectal Smooth Muscle	rectum
33	chr11:9995000-10008800	Weak transcription	Primary B cells from peripheral blood	blood
34	chr11:9995400-10004200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
35	chr11:9996000-10004200	Weak transcription	H1 Cell Line	embryonic stem cell
36	chr11:9996000-10024600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
37	chr11:9999000-10004000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
38	chr11:9999400-10004200	Weak transcription	Fetal Intestine Large	intestine
39	chr11:9999600-10004200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr11:9999600-10010200	Weak transcription	Adipose Nuclei	Adipose
41	chr11:9999600-10019800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
42	chr11:9999800-10004200	Weak transcription	Fetal Heart	heart
43	chr11:9999800-10009800	Weak transcription	Primary hematopoietic stem cells	blood
44	chr11:9999800-10024000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
45	chr11:9999800-10024200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
46	chr11:10000400-10004000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chr11:10000800-10004600	Weak transcription	Rectal Mucosa Donor 31	rectum
48	chr11:10001000-10003800	Weak transcription	Primary monocytes fromperipheralblood	blood
49	chr11:10001400-10066200	Weak transcription	Pancreas	Pancrea
50	chr11:10002200-10003800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin

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