Variant report

Variant	rs7896199
Chromosome Location	chr10:92691072-92691073
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 78 )
Associated
traits (count: 5 )

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

rs_ID	r²[population]
rs1001845	0.83[EUR][1000 genomes]
rs1001846	0.83[EUR][1000 genomes]
rs1072491	0.83[EUR][1000 genomes]
rs10736059	0.83[EUR][1000 genomes]
rs10785977	0.84[EUR][1000 genomes]
rs10785978	0.83[EUR][1000 genomes]
rs10785979	0.83[EUR][1000 genomes]
rs10785980	0.83[EUR][1000 genomes]
rs10785981	0.83[EUR][1000 genomes]
rs10881861	0.84[EUR][1000 genomes]
rs10881864	0.82[EUR][1000 genomes]
rs10881865	0.83[EUR][1000 genomes]
rs10881866	0.83[EUR][1000 genomes]
rs10881867	0.83[EUR][1000 genomes]
rs10881868	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10881870	0.82[EUR][1000 genomes]
rs10881871	0.83[EUR][1000 genomes]
rs11186383	0.85[EUR][1000 genomes]
rs11186384	0.82[EUR][1000 genomes]
rs11186385	0.83[EUR][1000 genomes]
rs11186390	0.83[EUR][1000 genomes]
rs11186398	0.83[EUR][1000 genomes]
rs11186399	0.83[EUR][1000 genomes]
rs1122870	0.83[EUR][1000 genomes]
rs11528048	0.83[EUR][1000 genomes]
rs11594833	0.83[EUR][1000 genomes]
rs11596841	0.83[EUR][1000 genomes]
rs11812869	0.83[EUR][1000 genomes]
rs11814844	0.83[EUR][1000 genomes]
rs12219023	0.83[EUR][1000 genomes]
rs12570633	0.83[EUR][1000 genomes]
rs12573344	0.84[EUR][1000 genomes]
rs12772494	0.81[EUR][1000 genomes]
rs12778021	0.83[EUR][1000 genomes]
rs12779258	0.82[EUR][1000 genomes]
rs12780522	0.83[EUR][1000 genomes]
rs1334580	0.83[EUR][1000 genomes]
rs1334582	0.83[EUR][1000 genomes]
rs1418815	0.83[EUR][1000 genomes]
rs1544217	0.83[EUR][1000 genomes]
rs2141375	0.83[EUR][1000 genomes]
rs2420498	0.84[EUR][1000 genomes]
rs28849130	0.83[EUR][1000 genomes]
rs3885867	0.83[EUR][1000 genomes]
rs3885868	0.83[EUR][1000 genomes]
rs3981165	0.84[EUR][1000 genomes]
rs4397747	0.83[EUR][1000 genomes]
rs4411211	0.83[EUR][1000 genomes]
rs4423105	0.83[EUR][1000 genomes]
rs4553280	0.83[EUR][1000 genomes]
rs4639845	0.83[EUR][1000 genomes]
rs4639846	0.83[EUR][1000 genomes]
rs4933627	0.83[EUR][1000 genomes]
rs4933630	0.83[EUR][1000 genomes]
rs4933632	0.83[EUR][1000 genomes]
rs6583740	0.83[EUR][1000 genomes]
rs6583741	0.83[EUR][1000 genomes]
rs7067705	0.83[EUR][1000 genomes]
rs7071167	0.83[EUR][1000 genomes]
rs7071323	0.83[EUR][1000 genomes]
rs7071533	0.83[EUR][1000 genomes]
rs7075411	0.83[EUR][1000 genomes]
rs7079028	0.83[EUR][1000 genomes]
rs7083495	0.83[EUR][1000 genomes]
rs7093432	0.83[EUR][1000 genomes]
rs7095281	0.82[EUR][1000 genomes]
rs7099297	0.83[EUR][1000 genomes]
rs7099420	0.83[EUR][1000 genomes]
rs7099671	0.83[EUR][1000 genomes]
rs7895456	0.83[EUR][1000 genomes]
rs7897141	0.83[EUR][1000 genomes]
rs7897403	0.83[EUR][1000 genomes]
rs7897603	0.83[EUR][1000 genomes]
rs7897624	0.83[EUR][1000 genomes]
rs7906208	0.83[EUR][1000 genomes]
rs7909942	1.00[CHB][hapmap];0.95[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs9664170	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][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	nsv831945	chr10:92590576-92793582	Active TSS Enhancers Flanking Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs7896199	APIP	trans	brain	seeQTL
rs7896199	LOC643599	cis	multi-tissue	Pritchard
rs7896199	ANKRD1	cis	cerebellum	SCAN
rs7896199	MMRN2	cis	cerebellum	SCAN
rs7896199	EPB41L3	trans	cerebellum	SCAN

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:92688400-92699800	Enhancers	Breast Myoepithelial Primary Cells	Breast
2	chr10:92688800-92691800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
3	chr10:92688800-92692000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr10:92689000-92691200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr10:92689000-92691200	Enhancers	Placenta	Placenta
6	chr10:92689000-92691200	Enhancers	Left Ventricle	heart
7	chr10:92689000-92691200	Enhancers	Psoas Muscle	Psoas
8	chr10:92689000-92691400	Enhancers	Right Atrium	heart
9	chr10:92689000-92691600	Enhancers	Adipose Nuclei	Adipose
10	chr10:92689000-92691600	Enhancers	Fetal Muscle Leg	muscle
11	chr10:92689000-92692000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr10:92689000-92692000	Enhancers	Fetal Muscle Trunk	muscle
13	chr10:92689000-92692000	Enhancers	Fetal Thymus	thymus
14	chr10:92689200-92691400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
15	chr10:92689200-92691600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr10:92689200-92691600	Enhancers	HMEC	breast
17	chr10:92689200-92691800	Flanking Active TSS	HUVEC	blood vessel
18	chr10:92689400-92691600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr10:92689400-92691600	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
20	chr10:92689400-92691800	Enhancers	Fetal Lung	lung
21	chr10:92689400-92695200	Weak transcription	Lung	lung
22	chr10:92689600-92691400	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
23	chr10:92689600-92691400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr10:92689600-92691400	Enhancers	Fetal Stomach	stomach
25	chr10:92689600-92691400	Flanking Active TSS	Hela-S3	cervix
26	chr10:92689600-92691600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr10:92689600-92691600	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
28	chr10:92689600-92691600	Enhancers	Thymus	Thymus
29	chr10:92689600-92691600	Flanking Active TSS	A549	lung
30	chr10:92689800-92691200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr10:92689800-92691400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr10:92689800-92691400	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr10:92689800-92691600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr10:92689800-92691600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr10:92689800-92691600	Enhancers	NHEK	skin
36	chr10:92690000-92691200	Enhancers	Colon Smooth Muscle	Colon
37	chr10:92690000-92691400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
38	chr10:92690000-92691400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr10:92690000-92691400	Enhancers	Fetal Kidney	kidney
40	chr10:92690000-92691600	Enhancers	Primary hematopoietic stem cells short term culture	blood
41	chr10:92690000-92691600	Flanking Active TSS	HepG2	liver
42	chr10:92690000-92691600	Flanking Active TSS	Osteobl	bone
43	chr10:92690000-92691800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
44	chr10:92690200-92691200	Enhancers	Brain Hippocampus Middle	brain
45	chr10:92690200-92691400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr10:92690200-92691400	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr10:92690200-92691600	Flanking Active TSS	NH-A	brain
48	chr10:92690200-92691800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr10:92690200-92695200	Weak transcription	Spleen	Spleen
50	chr10:92690400-92691200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin

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