Variant report

Variant	rs11188849
Chromosome Location	chr10:98362921-98362922
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10736113	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10748682	1.00[ASN][1000 genomes]
rs10748683	1.00[ASN][1000 genomes]
rs10748684	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10748685	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10786302	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10786303	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10786304	0.82[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.92[TSI][hapmap];0.87[YRI][hapmap];0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188835	0.84[CEU][hapmap];1.00[CHB][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap]
rs11188850	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11591933	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11592108	1.00[ASN][1000 genomes]
rs11592156	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11592969	1.00[ASN][1000 genomes]
rs11594403	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.82[TSI][hapmap];0.88[EUR][1000 genomes]
rs11596148	0.83[CEU][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs11598142	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11599054	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12247652	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17391197	1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17392013	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2861626	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2902003	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4919030	1.00[ASN][1000 genomes]
rs4919039	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55822182	1.00[ASN][1000 genomes]
rs60471672	1.00[ASN][1000 genomes]
rs61858218	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61858555	1.00[ASN][1000 genomes]
rs61858556	1.00[ASN][1000 genomes]
rs6584088	0.84[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.82[TSI][hapmap];0.82[EUR][1000 genomes]
rs7072865	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7073125	1.00[CEU][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7073735	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7093849	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7100639	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs744363	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7893530	0.84[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.87[TSI][hapmap];0.82[EUR][1000 genomes]
rs7897721	1.00[ASN][1000 genomes]
rs7923910	1.00[ASN][1000 genomes]
rs912485	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs912486	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3413353	chr10:98039370-98561524	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
2	nsv895909	chr10:98354924-98382165	Weak transcription Bivalent Enhancer Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv532232	chr10:98360775-99141797	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11188849	COX15	cis	parietal	SCAN

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98347800-98365800	Weak transcription	Ovary	ovary
2	chr10:98348000-98373600	Weak transcription	Left Ventricle	heart
3	chr10:98349800-98366400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr10:98349800-98367800	Weak transcription	Small Intestine	intestine
5	chr10:98350800-98395600	Strong transcription	Primary neutrophils fromperipheralblood	blood
6	chr10:98351600-98363400	Weak transcription	Brain Hippocampus Middle	brain
7	chr10:98352400-98378600	Strong transcription	Liver	Liver
8	chr10:98352400-98399400	Strong transcription	Primary B cells from peripheral blood	blood
9	chr10:98352600-98369400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
10	chr10:98352600-98403000	Strong transcription	Monocytes-CD14+_RO01746	blood
11	chr10:98353000-98388400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr10:98353000-98403000	Strong transcription	Primary monocytes fromperipheralblood	blood
13	chr10:98354600-98388600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr10:98354800-98370600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
15	chr10:98356200-98367200	Weak transcription	Colonic Mucosa	Colon
16	chr10:98357400-98364600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr10:98357600-98369200	Weak transcription	HepG2	liver
18	chr10:98357800-98382000	Strong transcription	GM12878-XiMat	blood
19	chr10:98358400-98363200	Strong transcription	Spleen	Spleen
20	chr10:98358600-98370400	Weak transcription	Primary T helper cells fromperipheralblood	blood
21	chr10:98358800-98369600	Weak transcription	Gastric	stomach
22	chr10:98359400-98373400	Weak transcription	Right Ventricle	heart
23	chr10:98359800-98366000	Weak transcription	Fetal Heart	heart
24	chr10:98360400-98366200	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr10:98360400-98392800	Weak transcription	Thymus	Thymus
26	chr10:98360600-98367400	Weak transcription	Duodenum Mucosa	Duodenum
27	chr10:98360800-98365800	Weak transcription	HSMMtube	muscle
28	chr10:98360800-98369400	Weak transcription	Primary T cells fromperipheralblood	blood
29	chr10:98361600-98363400	Strong transcription	Pancreas	Pancrea
30	chr10:98362000-98363000	Enhancers	Stomach Mucosa	stomach
31	chr10:98362200-98369000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr10:98362200-98389200	Strong transcription	Primary B cells from cord blood	blood
33	chr10:98362400-98365600	Weak transcription	Fetal Intestine Small	intestine
34	chr10:98362600-98365600	Weak transcription	Fetal Intestine Large	intestine
35	chr10:98362600-98367600	Weak transcription	Rectal Mucosa Donor 29	rectum
36	chr10:98362600-98373600	Weak transcription	Lung	lung
37	chr10:98362800-98363600	Strong transcription	Placenta	Placenta
38	chr10:98362800-98366200	Weak transcription	Primary hematopoietic stem cells	blood

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