Variant report

Variant	rs10764325
Chromosome Location	chr10:18440733-18440734
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:18440418..18442288-chr10:18448031..18451396,3	K562	blood:

Extended variants
information (count: 25 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10734038	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10740993	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.98[GIH][hapmap];0.86[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10740995	0.96[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10740996	0.83[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap];0.92[YRI][hapmap];0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10741003	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10764326	0.94[ASW][hapmap];0.88[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.91[GIH][hapmap];0.86[JPT][hapmap];0.91[LWK][hapmap];0.95[MEX][hapmap];0.91[MKK][hapmap];0.95[TSI][hapmap];0.92[YRI][hapmap];0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10764327	0.91[CEU][hapmap];0.81[CHB][hapmap];0.85[YRI][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10764329	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10764331	1.00[ASW][hapmap];0.88[CEU][hapmap];0.81[CHB][hapmap];0.86[CHD][hapmap];0.89[GIH][hapmap];0.91[LWK][hapmap];0.96[MEX][hapmap];0.93[TSI][hapmap];0.89[YRI][hapmap];0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10764332	1.00[ASW][hapmap];0.88[CEU][hapmap];0.81[CHB][hapmap];0.84[CHD][hapmap];0.89[GIH][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];0.95[TSI][hapmap];0.89[YRI][hapmap];0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10828269	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10828277	0.95[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10828280	0.94[ASW][hapmap];0.88[CEU][hapmap];0.86[CHB][hapmap];0.88[CHD][hapmap];0.89[GIH][hapmap];0.81[JPT][hapmap];0.82[LWK][hapmap];0.95[MEX][hapmap];0.87[MKK][hapmap];0.93[TSI][hapmap];0.89[YRI][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11596960	0.82[EUR][1000 genomes]
rs12572659	0.82[EUR][1000 genomes]
rs12770520	0.82[EUR][1000 genomes]
rs1331330	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2183718	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2183719	0.81[CHB][hapmap];0.96[YRI][hapmap]
rs2357790	0.81[EUR][1000 genomes]
rs2840320	1.00[CEU][hapmap];0.86[CHB][hapmap];0.87[CHD][hapmap];0.89[GIH][hapmap];0.81[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.92[YRI][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7080195	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7100500	0.84[AMR][1000 genomes]
rs7895735	0.80[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	nsv1054616	chr10:18433954-18451969	Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10764325	PTPLA	cis	cerebellum	SCAN
rs10764325	CACNB2	cis	cerebellum	SCAN

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:18430600-18446400	Weak transcription	Brain Angular Gyrus	brain
2	chr10:18430800-18442400	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr10:18431200-18447800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr10:18431200-18447800	Weak transcription	Fetal Intestine Large	intestine
5	chr10:18431400-18441200	Enhancers	Rectal Smooth Muscle	rectum
6	chr10:18431400-18468800	Weak transcription	Brain Cingulate Gyrus	brain
7	chr10:18432600-18446800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
8	chr10:18432600-18448000	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr10:18434200-18444000	Weak transcription	Primary hematopoietic stem cells	blood
10	chr10:18434200-18448000	Weak transcription	Pancreas	Pancrea
11	chr10:18435000-18454200	Weak transcription	Brain Anterior Caudate	brain
12	chr10:18435000-18467200	Weak transcription	Brain Hippocampus Middle	brain
13	chr10:18435200-18444000	Weak transcription	Fetal Heart	heart
14	chr10:18435400-18443800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr10:18436000-18448200	Weak transcription	Left Ventricle	heart
16	chr10:18440000-18441600	Enhancers	Fetal Brain Male	brain
17	chr10:18440200-18440800	Strong transcription	Pancreatic Islets	Pancreatic Islet
18	chr10:18440200-18441000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr10:18440200-18441600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr10:18440200-18441600	Genic enhancers	Stomach Smooth Muscle	stomach
21	chr10:18440200-18441800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr10:18440200-18444600	Strong transcription	Cortex derived primary cultured neurospheres	brain
23	chr10:18440400-18440800	Enhancers	Fetal Brain Female	brain
24	chr10:18440400-18440800	Genic enhancers	Fetal Lung	lung
25	chr10:18440600-18440800	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr10:18440600-18441200	Strong transcription	Aorta	Aorta
27	chr10:18440600-18441400	Enhancers	Colon Smooth Muscle	Colon
28	chr10:18440600-18441600	Strong transcription	Fetal Intestine Small	intestine
29	chr10:18440600-18441600	Strong transcription	Fetal Stomach	stomach
30	chr10:18440600-18441600	Strong transcription	Ovary	ovary

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