Variant report

Variant	rs11564396
Chromosome Location	chr18:25668990-25668991
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10502507	0.85[YRI][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1078501	1.00[ASW][hapmap];0.88[CEU][hapmap];0.94[CHB][hapmap];0.94[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10853681	1.00[MEX][hapmap];0.92[TSI][hapmap];0.85[YRI][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11083245	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11083246	0.81[CEU][hapmap];0.85[YRI][hapmap];0.97[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11083248	0.81[CEU][hapmap];0.82[CHB][hapmap];0.85[YRI][hapmap];0.97[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1122356	0.88[CHB][hapmap];0.83[CHD][hapmap]
rs1148376	0.94[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11564297	0.88[CEU][hapmap];0.94[CHB][hapmap];0.94[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11564316	0.88[CEU][hapmap];0.94[CHB][hapmap];0.94[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11564329	0.85[YRI][hapmap];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11564393	0.82[EUR][1000 genomes]
rs11564397	0.81[CEU][hapmap];0.82[CHB][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];0.92[TSI][hapmap];0.85[YRI][hapmap];0.97[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11564400	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11564405	0.81[CEU][hapmap];0.97[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11564409	0.88[CEU][hapmap];0.94[CHB][hapmap];0.91[JPT][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11873053	0.88[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1220015	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1220016	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1220019	0.89[ASN][1000 genomes]
rs1228419	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1234682	0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs1373136	0.88[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1373138	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1443453	0.80[TSI][hapmap]
rs17446316	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17463213	0.85[YRI][hapmap];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17463233	0.85[YRI][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17463295	0.81[CEU][hapmap];0.82[CHB][hapmap];0.85[YRI][hapmap];0.97[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17468531	0.88[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17468636	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17468678	0.81[CEU][hapmap]
rs1808940	0.80[CEU][hapmap];0.85[YRI][hapmap];0.97[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1816825	1.00[CEU][hapmap];0.88[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1867285	1.00[MEX][hapmap];0.92[TSI][hapmap];0.85[YRI][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1944292	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1944294	0.80[TSI][hapmap]
rs1972934	1.00[MEX][hapmap];0.92[TSI][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2053599	0.85[YRI][hapmap];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2920447	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs4598992	0.84[TSI][hapmap]
rs4800838	0.80[TSI][hapmap]
rs4800840	0.88[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4800841	0.81[CEU][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.85[YRI][hapmap];0.95[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs490820	0.88[CHB][hapmap]
rs500643	0.88[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs533602	0.94[CHB][hapmap]
rs539075	1.00[CHB][hapmap]
rs565509	0.88[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs568575	0.94[CHB][hapmap]
rs576467	0.88[CHB][hapmap]
rs584936	0.88[CHB][hapmap]
rs587526	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs587613	0.94[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs597591	0.88[CHB][hapmap];0.83[CHD][hapmap]
rs602819	0.94[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs610906	0.93[ASN][1000 genomes]
rs614966	0.88[CHB][hapmap];0.83[CHD][hapmap]
rs623234	0.88[CHB][hapmap];0.86[CHD][hapmap]
rs643555	0.88[CHB][hapmap];0.86[CHD][hapmap]
rs647733	0.88[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs656642	0.88[CHB][hapmap]
rs665651	0.94[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs665781	0.88[CHB][hapmap];0.86[CHD][hapmap]
rs673008	0.88[CHB][hapmap];0.85[CHD][hapmap];0.81[GIH][hapmap];0.82[TSI][hapmap]
rs683457	0.93[ASN][1000 genomes]
rs694943	0.88[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7230771	0.88[CEU][hapmap];0.94[CHB][hapmap];0.94[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7237382	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs72639459	0.93[AMR][1000 genomes]
rs8087457	0.81[CHB][hapmap];0.89[CHD][hapmap];0.81[JPT][hapmap]
rs8087860	0.81[CEU][hapmap];0.94[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.92[TSI][hapmap];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8091314	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs894679	0.81[CEU][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.85[YRI][hapmap];0.97[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9635986	0.87[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9789154	0.88[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9789221	0.92[TSI][hapmap];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2761996	chr18:24866083-25818618	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:25655800-25690800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr18:25662800-25670000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr18:25665600-25669800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr18:25665600-25671800	Weak transcription	Left Ventricle	heart
5	chr18:25666400-25671000	Enhancers	HepG2	liver
6	chr18:25667400-25669000	Enhancers	ES-I3 Cell Line	embryonic stem cell
7	chr18:25667400-25669000	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
8	chr18:25667400-25669000	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
9	chr18:25667400-25669000	Enhancers	Fetal Brain Male	brain
10	chr18:25667400-25670400	Weak transcription	Gastric	stomach
11	chr18:25667400-25671200	Enhancers	Liver	Liver
12	chr18:25667400-25672400	Enhancers	Fetal Heart	heart
13	chr18:25667600-25669000	Enhancers	Brain Inferior Temporal Lobe	brain
14	chr18:25667600-25669000	Enhancers	NH-A	brain
15	chr18:25667600-25669200	Enhancers	Brain Cingulate Gyrus	brain
16	chr18:25667600-25669800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr18:25667600-25669800	Weak transcription	Fetal Intestine Small	intestine
18	chr18:25667600-25670200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr18:25667600-25670400	Enhancers	Brain Germinal Matrix	brain
20	chr18:25667600-25670400	Weak transcription	Right Atrium	heart
21	chr18:25667600-25672200	Enhancers	Cortex derived primary cultured neurospheres	brain
22	chr18:25668000-25669400	Bivalent Enhancer	HUES64 Cell Line	embryonic stem cell
23	chr18:25668000-25671400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr18:25668000-25680200	Weak transcription	HSMM	muscle
25	chr18:25668200-25669800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr18:25668200-25669800	Enhancers	Fetal Brain Female	brain
27	chr18:25668200-25670600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr18:25668200-25688000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr18:25668400-25670800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr18:25668600-25669800	Weak transcription	A549	lung
31	chr18:25668800-25669600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr18:25668800-25670800	Weak transcription	Brain Angular Gyrus	brain
33	chr18:25668800-25671200	Weak transcription	Osteobl	bone
34	chr18:25668800-25671800	Weak transcription	Brain Substantia Nigra	brain
35	chr18:25668800-25671800	Weak transcription	Right Ventricle	heart
36	chr18:25668800-25672000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain

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