Variant report

Variant	rs2276765
Chromosome Location	chr3:151131222-151131223
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	chr3:151097198..151097813-chr3:151130478..151131421,2	MCF-7	breast:

Extended variants
information (count: 52 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10935840	0.96[CEU][hapmap];0.85[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10935841	0.96[CEU][hapmap];0.85[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.91[TSI][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10935842	0.96[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10935843	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11707416	0.96[CEU][hapmap];0.85[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.91[TSI][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11708287	0.95[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11708767	0.96[CEU][hapmap];0.85[EUR][1000 genomes]
rs11709550	0.96[CEU][hapmap];0.85[EUR][1000 genomes]
rs11713504	0.95[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11717169	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11923424	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12485508	0.96[CEU][hapmap];0.85[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];0.92[JPT][hapmap];0.95[MEX][hapmap];0.91[TSI][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12488803	0.96[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12489121	0.95[CEU][hapmap];0.84[EUR][1000 genomes]
rs12490051	0.96[CEU][hapmap];0.85[EUR][1000 genomes]
rs12490184	0.86[CHB][hapmap];0.85[JPT][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12492266	0.86[CHB][hapmap];0.92[JPT][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12493628	0.96[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12497065	0.96[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12497089	0.96[CEU][hapmap];0.85[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12498042	0.96[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17204501	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17204508	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17204515	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17204536	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17283010	0.96[CEU][hapmap];0.85[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.91[TSI][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17283038	0.96[CEU][hapmap];0.84[EUR][1000 genomes]
rs17283052	0.96[CEU][hapmap];0.86[EUR][1000 genomes]
rs17283059	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3732765	0.96[CEU][hapmap];0.85[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3821663	0.96[CEU][hapmap];0.85[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4679817	0.96[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4680400	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4680405	0.96[CEU][hapmap];0.83[EUR][1000 genomes]
rs4680406	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.91[TSI][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4680408	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57335550	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57781984	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59605118	0.85[EUR][1000 genomes]
rs60105866	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs67886110	0.85[EUR][1000 genomes]
rs6798637	0.96[CEU][hapmap];0.85[EUR][1000 genomes]
rs6803771	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.88[TSI][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73159907	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73159908	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73159915	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73159920	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs765281	0.96[CEU][hapmap];0.85[EUR][1000 genomes]
rs9859538	0.85[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.85[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	nsv829757	chr3:151044880-151226442	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1000355	chr3:151108859-151243835	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv995048	chr3:151114074-151560019	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs2276765	P2RY12	cis	lung	GTEx
rs2276765	P2RY12	cis	Adipose Subcutaneous	GTEx
rs2276765	P2RY12	cis	Artery Tibial	GTEx

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:151075600-151136400	Weak transcription	Fetal Brain Female	brain
2	chr3:151090200-151142400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
3	chr3:151098800-151143400	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr3:151102200-151148600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr3:151102600-151132000	Weak transcription	Brain Angular Gyrus	brain
6	chr3:151102800-151136400	Weak transcription	Brain Substantia Nigra	brain
7	chr3:151102800-151150600	Weak transcription	Brain Anterior Caudate	brain
8	chr3:151104200-151139600	Weak transcription	Dnd41	blood
9	chr3:151106000-151134200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr3:151106000-151154600	Weak transcription	Fetal Muscle Leg	muscle
11	chr3:151112800-151143400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr3:151113200-151142600	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr3:151113400-151143600	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr3:151117600-151142600	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr3:151119000-151142600	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr3:151121800-151138400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr3:151122600-151135400	Weak transcription	Primary neutrophils fromperipheralblood	blood
18	chr3:151122800-151139800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
19	chr3:151123200-151139600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr3:151124600-151139200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr3:151125600-151131600	Strong transcription	Primary hematopoietic stem cells	blood
22	chr3:151126800-151140200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr3:151126800-151148600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
24	chr3:151127200-151149200	Weak transcription	Brain Cingulate Gyrus	brain
25	chr3:151128000-151132400	Strong transcription	Cortex derived primary cultured neurospheres	brain
26	chr3:151129400-151137800	Weak transcription	Placenta	Placenta
27	chr3:151129400-151142400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr3:151129400-151162800	Weak transcription	Fetal Muscle Trunk	muscle
29	chr3:151130800-151131400	Enhancers	Adipose Nuclei	Adipose
30	chr3:151130800-151132000	Strong transcription	Fetal Intestine Small	intestine
31	chr3:151130800-151142600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr3:151131000-151132400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
33	chr3:151131200-151132400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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