Variant report

Variant	rs11084857
Chromosome Location	chr19:36858944-36858945
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 70 )
Associated
traits (count: 8 )

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs10418925	0.95[CHB][hapmap];0.86[JPT][hapmap];0.80[ASN][1000 genomes]
rs11084855	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1127406	0.84[CEU][hapmap];0.86[CHB][hapmap];0.85[JPT][hapmap];0.82[EUR][1000 genomes]
rs1129375	0.84[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1129376	0.85[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11882601	0.88[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12460237	0.87[CHB][hapmap]
rs12609058	0.85[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap]
rs17206365	0.87[CEU][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17639740	0.96[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2432048	0.85[CHB][hapmap]
rs2432053	0.86[CHB][hapmap];0.86[CHD][hapmap]
rs2432055	0.86[CHB][hapmap];0.88[CHD][hapmap]
rs2910681	0.86[CHB][hapmap];0.89[CHD][hapmap]
rs2918325	0.86[CHB][hapmap];0.80[MEX][hapmap]
rs2918350	0.82[ASN][1000 genomes]
rs2918352	0.81[EUR][1000 genomes]
rs2918353	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2918354	0.80[ASN][1000 genomes]
rs2918362	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2918363	0.81[ASN][1000 genomes]
rs2918366	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2918367	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2918371	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2918374	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2918377	0.86[CHB][hapmap]
rs2918384	0.86[CHB][hapmap];0.89[CHD][hapmap];0.81[JPT][hapmap];0.83[MEX][hapmap]
rs2967486	0.81[ASN][1000 genomes]
rs2967487	0.81[ASN][1000 genomes]
rs2967488	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2967490	0.85[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.86[JPT][hapmap];0.96[MEX][hapmap];0.93[TSI][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2967491	0.85[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.86[JPT][hapmap];0.96[MEX][hapmap];0.93[TSI][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2967492	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2967494	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2967495	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2967498	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2967499	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2967502	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2967503	0.80[EUR][1000 genomes]
rs2972533	0.86[CHB][hapmap];0.87[CHD][hapmap];0.81[JPT][hapmap]
rs2972540	0.89[CHD][hapmap]
rs2972630	0.85[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2972631	0.95[CHB][hapmap]
rs2972634	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2972635	0.83[ASN][1000 genomes]
rs2972636	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2972638	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2972643	0.85[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2972650	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2972654	0.84[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2972655	0.81[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34723481	0.80[ASN][1000 genomes]
rs35822095	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs57488812	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58192477	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60499535	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs60842204	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62112620	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62112621	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62112627	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62112629	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62112634	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6510528	0.82[CHB][hapmap]
rs73043854	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7343105	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8111845	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8113638	0.97[AMR][1000 genomes];0.99[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	nsv2474	chr19:36804469-36865415	Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv833816	chr19:36824257-37034287	ZNF genes & repeats Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
3	nsv174	chr19:36831719-36865415	Weak transcription Strong transcription ZNF genes & repeats Active TSS Enhancers Genic enhancers	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:8)

SNP	Gene	Cis/trans	Tissue	Source
rs11084857	LOC284412	N/A	lymphoblastoid	RTeQTL
rs11084857	TMEM91	cis	cerebellum	SCAN
rs11084857	SERTAD1	cis	cerebellum	SCAN
rs11084857	GGN	cis	cerebellum	SCAN
rs11084857	ZNF383	cis	cerebellum	SCAN
rs11084857	APOE	cis	cerebellum	SCAN
rs11084857	DPF1	cis	cerebellum	SCAN
rs11084857	ZFP82	cis	lymphoblastoid	seeQTL

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:36827200-36862200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr19:36830600-36869400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr19:36832200-36868600	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr19:36834200-36868800	Weak transcription	Muscle Satellite Cultured Cells	--
5	chr19:36835800-36868800	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr19:36836400-36868000	Weak transcription	Psoas Muscle	Psoas
7	chr19:36836600-36863400	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr19:36838000-36868600	Weak transcription	Stomach Mucosa	stomach
9	chr19:36842400-36861200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr19:36844200-36868800	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr19:36845800-36859200	Weak transcription	Fetal Thymus	thymus
12	chr19:36846600-36866400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr19:36847200-36859200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr19:36847200-36859800	Strong transcription	Primary B cells from peripheral blood	blood
15	chr19:36847400-36862200	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood
16	chr19:36848200-36860200	Weak transcription	NHDF-Ad	bronchial
17	chr19:36848400-36861000	Weak transcription	NH-A	brain
18	chr19:36848800-36862000	Weak transcription	Hela-S3	cervix
19	chr19:36850000-36868000	Weak transcription	Fetal Heart	heart
20	chr19:36850400-36859200	Strong transcription	Fetal Intestine Large	intestine
21	chr19:36850800-36862000	ZNF genes & repeats	Primary hematopoietic stem cells	blood
22	chr19:36851800-36863600	Weak transcription	Fetal Kidney	kidney
23	chr19:36852200-36867600	Weak transcription	HepG2	liver
24	chr19:36854200-36859800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
25	chr19:36854400-36859000	ZNF genes & repeats	A549	lung
26	chr19:36854400-36859000	Strong transcription	Dnd41	blood
27	chr19:36854400-36859200	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr19:36854400-36859600	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
29	chr19:36854400-36859600	Strong transcription	Fetal Stomach	stomach
30	chr19:36854400-36862000	ZNF genes & repeats	Liver	Liver
31	chr19:36854400-36862600	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
32	chr19:36854600-36859000	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr19:36854600-36859000	ZNF genes & repeats	Primary T cells from cord blood	blood
34	chr19:36854600-36859200	Strong transcription	Ovary	ovary
35	chr19:36854600-36859800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
36	chr19:36854800-36861200	Strong transcription	Brain Germinal Matrix	brain
37	chr19:36855000-36859000	Strong transcription	Cortex derived primary cultured neurospheres	brain
38	chr19:36855000-36859000	Strong transcription	Brain Angular Gyrus	brain
39	chr19:36855000-36859000	Strong transcription	Skeletal Muscle Male	skeletal muscle
40	chr19:36855000-36859400	Strong transcription	Skeletal Muscle Female	skeletal muscle
41	chr19:36855000-36859800	Strong transcription	Fetal Brain Female	brain
42	chr19:36855000-36859800	ZNF genes & repeats	Lung	lung
43	chr19:36855000-36861600	ZNF genes & repeats	Primary neutrophils fromperipheralblood	blood
44	chr19:36855000-36862200	ZNF genes & repeats	Primary T helper naive cells fromperipheralblood	blood
45	chr19:36855200-36859000	Strong transcription	Brain Inferior Temporal Lobe	brain
46	chr19:36855200-36860400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr19:36855400-36859000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
48	chr19:36855400-36860600	Weak transcription	HSMM	muscle
49	chr19:36855600-36859000	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
50	chr19:36855600-36859600	Strong transcription	Duodenum Smooth Muscle	Duodenum

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