Variant report

Variant	rs10495227
Chromosome Location	chr1:224889571-224889572
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:224888278..224889586-chr1:225038704..225039646,5	MCF-7	breast:
2	chr1:224882945..224885447-chr1:224889455..224891684,2	K562	blood:
3	chr1:224888594..224889617-chr1:225040192..225040901,3	MCF-7	breast:
4	chr1:224888777..224889662-chr1:225110350..225110931,2	K562	blood:
5	chr1:224888426..224889670-chr1:225038968..225039823,3	K562	blood:

Extended variants
information (count: 30 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs1036431	0.85[CEU][hapmap];0.86[GIH][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1039265	0.83[CEU][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10915691	0.85[CEU][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10915693	0.85[CEU][hapmap];0.88[CHB][hapmap];0.84[CHD][hapmap];0.97[GIH][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];0.93[TSI][hapmap];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10915695	0.85[CEU][hapmap];0.88[CHB][hapmap];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11805320	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12058085	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12060334	0.85[CEU][hapmap];0.92[CHB][hapmap];0.85[JPT][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12062831	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12065840	0.85[CEU][hapmap];0.83[GIH][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12068125	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12072810	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12073052	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12077707	0.84[CEU][hapmap]
rs12088524	0.85[CEU][hapmap];0.88[CHB][hapmap];0.84[CHD][hapmap];1.00[GIH][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12092532	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12562581	0.93[CEU][hapmap];0.82[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12567125	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1337538	0.92[CEU][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1465766	0.92[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1465767	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16850786	0.85[CEU][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4363402	0.85[CEU][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61603030	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61827113	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs61827152	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6426147	0.85[CEU][hapmap];0.88[CHB][hapmap];0.84[CHD][hapmap];0.97[GIH][hapmap];0.82[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];0.93[TSI][hapmap];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6695864	0.83[TSI][hapmap]
rs7541279	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.94[YRI][hapmap];0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7554310	0.85[CEU][hapmap];0.83[GIH][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10495227	PYCR2	cis	cerebellum	SCAN
rs10495227	RAB3GAP2	cis	cerebellum	SCAN

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:224862400-224902000	Weak transcription	Pancreas	Pancrea
2	chr1:224877600-224891600	Weak transcription	Dnd41	blood
3	chr1:224881400-224895400	Weak transcription	Ovary	ovary
4	chr1:224885000-224920200	Weak transcription	Right Atrium	heart
5	chr1:224885200-224891200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr1:224885600-224895200	Weak transcription	NH-A	brain
7	chr1:224885800-224891200	Weak transcription	NHLF	lung
8	chr1:224885800-224891400	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr1:224885800-224895200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr1:224886000-224890200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr1:224886200-224891600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr1:224886200-224891600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr1:224888400-224894200	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr1:224888800-224891400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr1:224888800-224895600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr1:224889000-224890000	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr1:224889000-224892600	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr1:224889200-224890400	Weak transcription	HUES48 Cell Line	embryonic stem cell
19	chr1:224889200-224890400	Weak transcription	HUES6 Cell Line	embryonic stem cell
20	chr1:224889200-224890800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
21	chr1:224889200-224891400	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr1:224889200-224891600	Weak transcription	NHDF-Ad	bronchial
23	chr1:224889400-224891600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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