Variant report

Variant	rs856534
Chromosome Location	chr10:94810665-94810666
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:94809589..94812648-chr10:94815329..94819605,4	K562	blood:

Extended variants
information (count: 50 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10748584	0.93[CHB][hapmap]
rs10748589	0.92[ASN][1000 genomes]
rs10786059	0.93[CHB][hapmap]
rs10786060	0.93[CHB][hapmap]
rs10786065	0.86[ASN][1000 genomes]
rs10786066	0.90[ASN][1000 genomes]
rs10786067	0.92[ASN][1000 genomes]
rs10882117	0.93[CHB][hapmap]
rs10882121	0.93[CHB][hapmap]
rs10882123	0.93[CHB][hapmap]
rs10882125	0.93[CHB][hapmap]
rs10882129	0.93[CHB][hapmap]
rs11187256	0.90[EUR][1000 genomes]
rs11187262	0.88[CEU][hapmap];0.89[GIH][hapmap];0.87[TSI][hapmap];0.92[EUR][1000 genomes]
rs11516919	0.93[CHB][hapmap]
rs12256889	0.92[CHD][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs12263369	0.89[EUR][1000 genomes]
rs1339821	0.92[CEU][hapmap];0.89[GIH][hapmap];0.87[TSI][hapmap];0.92[EUR][1000 genomes]
rs1571034	0.93[CHB][hapmap]
rs1987017	0.93[CHB][hapmap]
rs2297918	0.90[EUR][1000 genomes]
rs2478236	0.90[EUR][1000 genomes]
rs2486681	0.91[EUR][1000 genomes]
rs2486684	0.91[EUR][1000 genomes]
rs3736936	0.86[ASN][1000 genomes]
rs4411227	0.81[JPT][hapmap]
rs4508117	0.93[CHB][hapmap]
rs4568938	0.90[ASN][1000 genomes]
rs4919594	0.86[JPT][hapmap];0.87[ASN][1000 genomes]
rs4933753	0.93[CHB][hapmap]
rs55843714	0.90[EUR][1000 genomes]
rs7068232	0.93[CHB][hapmap]
rs7068500	0.90[ASN][1000 genomes]
rs7087174	0.93[CHB][hapmap]
rs7095772	0.93[CHB][hapmap]
rs7096857	0.92[ASN][1000 genomes]
rs7895716	0.90[ASN][1000 genomes]
rs7910006	0.93[CHB][hapmap]
rs7914571	0.93[CHB][hapmap]
rs7915463	0.86[CHB][hapmap]
rs7922067	0.92[CEU][hapmap];0.89[GIH][hapmap];0.89[TSI][hapmap];0.91[EUR][1000 genomes]
rs8211	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];0.98[TSI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs835238	0.93[CHB][hapmap]
rs835273	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs835276	0.91[EUR][1000 genomes]
rs835278	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9633694	0.93[CHB][hapmap]

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	nsv895898	chr10:94628274-94810665	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv522103	chr10:94660133-94810665	ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv551942	chr10:94695617-94810665	Strong transcription Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs856534	CYP2C9	cis	cerebellum	SCAN
rs856534	PDLIM1	cis	cerebellum	SCAN
rs856534	SLC16A12	cis	cerebellum	SCAN
rs856534	BTAF1	cis	cerebellum	SCAN

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:94713200-94819400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr10:94775400-94812800	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr10:94785200-94819000	Weak transcription	Thymus	Thymus
4	chr10:94787200-94817600	Weak transcription	Dnd41	blood
5	chr10:94787800-94814000	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr10:94788000-94819000	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr10:94788000-94819400	Weak transcription	Left Ventricle	heart
8	chr10:94788400-94811000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr10:94788400-94815800	Weak transcription	Fetal Muscle Leg	muscle
10	chr10:94790800-94813800	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr10:94792600-94819600	Weak transcription	Aorta	Aorta
12	chr10:94792600-94819800	Weak transcription	HSMMtube	muscle
13	chr10:94793200-94811200	Weak transcription	HepG2	liver
14	chr10:94795600-94817800	Weak transcription	Fetal Intestine Small	intestine
15	chr10:94795800-94819600	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr10:94799800-94817000	Weak transcription	Primary monocytes fromperipheralblood	blood
17	chr10:94800000-94818400	Weak transcription	Primary B cells from peripheral blood	blood
18	chr10:94800800-94817600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
19	chr10:94800800-94818000	Weak transcription	Primary hematopoietic stem cells	blood
20	chr10:94801000-94816600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr10:94801400-94818800	Weak transcription	Primary T cells from cord blood	blood
22	chr10:94801800-94820200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
23	chr10:94803600-94817600	Weak transcription	Primary neutrophils fromperipheralblood	blood
24	chr10:94803600-94818000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr10:94803800-94812000	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr10:94804000-94811000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
27	chr10:94804000-94819800	Weak transcription	Primary T helper cells PMA-I stimulated	--
28	chr10:94804200-94821000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr10:94804600-94817800	Weak transcription	Monocytes-CD14+_RO01746	blood
30	chr10:94806200-94815800	Weak transcription	Primary B cells from cord blood	blood
31	chr10:94806200-94816600	Weak transcription	HUVEC	blood vessel
32	chr10:94806200-94821000	Weak transcription	Gastric	stomach
33	chr10:94807800-94819800	Weak transcription	Duodenum Mucosa	Duodenum
34	chr10:94808000-94821000	Weak transcription	Pancreas	Pancrea
35	chr10:94808200-94815600	Weak transcription	Primary T helper cells fromperipheralblood	blood
36	chr10:94809000-94813800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr10:94809000-94819400	Weak transcription	Spleen	Spleen
38	chr10:94809600-94811000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr10:94809600-94817800	Weak transcription	Skeletal Muscle Female	skeletal muscle
40	chr10:94809800-94818600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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