Variant report

Variant	rs4756842
Chromosome Location	chr11:15997739-15997740
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:15993560..15998365-chr11:15999415..16005158,8	K562	blood:
2	chr11:15989159..15992017-chr11:15995750..15998215,2	K562	blood:
3	chr11:15993161..15994874-chr11:15996366..15998234,2	K562	blood:

Extended variants
information (count: 62 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10734238	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10741687	0.85[CEU][hapmap];0.84[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];0.95[TSI][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10741689	0.85[CEU][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10766291	0.81[CEU][hapmap];0.87[GIH][hapmap];0.93[TSI][hapmap]
rs10766292	0.81[CEU][hapmap];0.87[GIH][hapmap];0.93[TSI][hapmap];0.81[EUR][1000 genomes]
rs10766293	0.81[CEU][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];0.95[TSI][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10766294	0.85[CEU][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];1.00[LWK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10766295	0.81[CEU][hapmap];0.89[GIH][hapmap];1.00[LWK][hapmap];0.83[MKK][hapmap];0.88[TSI][hapmap];1.00[YRI][hapmap]
rs10766298	0.81[CEU][hapmap];0.89[GIH][hapmap];1.00[LWK][hapmap];0.83[MKK][hapmap];0.88[TSI][hapmap];1.00[YRI][hapmap]
rs10766300	0.81[CEU][hapmap];1.00[YRI][hapmap]
rs10832538	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10832539	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10832540	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10832541	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10832542	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.98[TSI][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10832543	0.82[CEU][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];1.00[LWK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10832544	0.81[EUR][1000 genomes]
rs10832545	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10832551	1.00[YRI][hapmap]
rs10832553	0.81[CEU][hapmap];1.00[YRI][hapmap]
rs10832554	0.81[CEU][hapmap];0.89[GIH][hapmap];1.00[LWK][hapmap];0.83[MKK][hapmap];0.88[TSI][hapmap];1.00[YRI][hapmap]
rs11023806	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11023807	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11023808	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11023809	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11023810	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11023813	0.84[CHB][hapmap];0.80[ASN][1000 genomes]
rs11023814	0.83[CHB][hapmap]
rs11023815	0.89[CEU][hapmap];0.84[CHB][hapmap];0.93[JPT][hapmap];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11023819	0.85[CEU][hapmap];0.84[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11023820	0.88[CEU][hapmap];0.97[GIH][hapmap];0.93[JPT][hapmap];0.93[TSI][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11023821	0.81[CEU][hapmap];0.87[GIH][hapmap];0.93[TSI][hapmap];0.80[EUR][1000 genomes]
rs11023823	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11023826	0.85[CEU][hapmap];0.93[JPT][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11023833	0.81[CEU][hapmap];1.00[YRI][hapmap]
rs11602209	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12276728	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12278364	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12418884	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12420343	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1455106	0.81[CEU][hapmap];0.88[GIH][hapmap];0.83[MKK][hapmap];0.88[TSI][hapmap]
rs35038372	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35189093	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35572903	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs36029390	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3922559	0.85[CEU][hapmap];0.87[GIH][hapmap];0.93[TSI][hapmap];0.80[EUR][1000 genomes]
rs4237711	0.82[JPT][hapmap]
rs4335501	0.85[CEU][hapmap];0.93[JPT][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4335502	0.85[CEU][hapmap];0.93[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4342995	0.81[CEU][hapmap];0.87[GIH][hapmap];0.93[TSI][hapmap];0.80[EUR][1000 genomes]
rs4437995	0.85[CEU][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];1.00[LWK][hapmap];0.83[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4539287	1.00[ASW][hapmap];0.92[CEU][hapmap];0.89[CHB][hapmap];0.84[CHD][hapmap];0.92[GIH][hapmap];0.87[JPT][hapmap];1.00[LWK][hapmap];0.88[MEX][hapmap];1.00[MKK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4627036	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4756841	1.00[ASW][hapmap];0.96[CEU][hapmap];0.97[GIH][hapmap];0.93[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4757378	0.81[CEU][hapmap];0.82[EUR][1000 genomes]
rs4757379	0.81[CEU][hapmap];0.87[GIH][hapmap];0.93[TSI][hapmap];0.81[EUR][1000 genomes]
rs4757380	0.94[CHD][hapmap];0.92[GIH][hapmap];0.93[JPT][hapmap];1.00[LWK][hapmap];0.88[TSI][hapmap];1.00[YRI][hapmap];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7111279	0.81[EUR][1000 genomes]
rs7947265	0.81[CEU][hapmap];0.80[EUR][1000 genomes]
rs9645647	0.88[TSI][hapmap]
rs9645648	0.81[CEU][hapmap];0.89[GIH][hapmap];0.86[TSI][hapmap];0.81[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	nsv832074	chr11:15927105-16100772	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4756842	TMEM86A	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:15990400-16011600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr11:15991600-16006600	Weak transcription	Liver	Liver
3	chr11:15991800-15998000	Weak transcription	Aorta	Aorta
4	chr11:15991800-16006800	Weak transcription	Fetal Muscle Leg	muscle
5	chr11:15992400-16006600	Weak transcription	Duodenum Mucosa	Duodenum
6	chr11:15992600-15998000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr11:15992600-16002400	Weak transcription	Stomach Mucosa	stomach
8	chr11:15992600-16006800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr11:15992800-15998000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr11:15992800-15998000	Weak transcription	NHEK	skin
11	chr11:15993000-15999000	Weak transcription	Right Atrium	heart
12	chr11:15993000-16006800	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr11:15993000-16010600	Weak transcription	Pancreas	Pancrea
14	chr11:15993000-16012800	Weak transcription	Right Ventricle	heart
15	chr11:15993200-15997800	Weak transcription	Psoas Muscle	Psoas
16	chr11:15993200-16009600	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr11:15993200-16010400	Weak transcription	Left Ventricle	heart
18	chr11:15993600-16006600	Weak transcription	Fetal Intestine Small	intestine
19	chr11:15994000-15999600	Strong transcription	Cortex derived primary cultured neurospheres	brain
20	chr11:15995000-16002600	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr11:15995400-16006800	Weak transcription	Fetal Intestine Large	intestine
22	chr11:15997000-15999400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr11:15997200-15997800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr11:15997200-15998600	Enhancers	NHLF	lung
25	chr11:15997200-15999000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr11:15997200-15999200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr11:15997400-15997800	Enhancers	Fetal Lung	lung
28	chr11:15997400-15997800	Enhancers	HepG2	liver
29	chr11:15997400-15998000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr11:15997400-15998000	Enhancers	Osteobl	bone
31	chr11:15997400-15998800	Enhancers	Placenta Amnion	Placenta Amnion
32	chr11:15997400-15999400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr11:15997600-15997800	Enhancers	Fetal Heart	heart
34	chr11:15997600-15998200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr11:15997600-15998200	Enhancers	Placenta	Placenta
36	chr11:15997600-15998800	Enhancers	NHDF-Ad	bronchial
37	chr11:15997600-15999000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr11:15997600-15999400	Enhancers	K562	blood

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