Variant report

Variant	rs2299001
Chromosome Location	chr4:110917487-110917488
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10021697	0.80[EUR][1000 genomes]
rs11098060	0.87[CEU][hapmap]
rs11098061	0.86[EUR][1000 genomes]
rs11568943	0.81[JPT][hapmap];0.93[TSI][hapmap]
rs11569017	1.00[CEU][hapmap];0.88[JPT][hapmap];0.82[EUR][1000 genomes]
rs11569019	0.94[JPT][hapmap]
rs11569020	0.81[CHB][hapmap];0.94[JPT][hapmap]
rs11569121	0.87[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11569126	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2237042	0.81[JPT][hapmap]
rs2250724	0.81[JPT][hapmap];0.86[TSI][hapmap]
rs2255355	0.93[TSI][hapmap]
rs2298982	0.86[TSI][hapmap]
rs2298986	0.81[JPT][hapmap]
rs2298996	0.81[JPT][hapmap]
rs3733625	1.00[ASW][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3733626	0.84[TSI][hapmap]
rs3796947	0.81[JPT][hapmap];0.93[TSI][hapmap]
rs55843825	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56025809	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56725761	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56908291	0.93[AMR][1000 genomes];0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs57515702	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs60806711	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6823529	0.81[JPT][hapmap];0.86[TSI][hapmap]
rs6825106	0.86[TSI][hapmap]
rs72676965	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72676970	0.80[ASN][1000 genomes]
rs730598	0.80[CHB][hapmap];1.00[JPT][hapmap]
rs7661968	0.81[JPT][hapmap];0.92[TSI][hapmap]
rs7670908	0.94[JPT][hapmap];0.86[TSI][hapmap]
rs9991367	0.82[CHB][hapmap];0.94[JPT][hapmap];0.86[TSI][hapmap]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2299001	EYA2	trans	lymphoblastoid	seeQTL
rs2299001	C6orf191	trans	lymphoblastoid	seeQTL

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:110895000-110928600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr4:110901000-110929600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr4:110901400-110920800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr4:110906800-110920800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr4:110907000-110932400	Weak transcription	Psoas Muscle	Psoas
6	chr4:110907800-110927400	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr4:110910200-110920400	Weak transcription	Fetal Intestine Small	intestine
8	chr4:110910400-110935200	Weak transcription	Pancreas	Pancrea
9	chr4:110910600-110929800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr4:110910800-110926800	Weak transcription	Fetal Heart	heart
11	chr4:110911800-110917800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr4:110912000-110917800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr4:110913200-110917600	Weak transcription	Primary B cells from cord blood	blood
14	chr4:110914200-110918600	Enhancers	Primary monocytes fromperipheralblood	blood
15	chr4:110915800-110917600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr4:110916000-110918600	Enhancers	Monocytes-CD14+_RO01746	blood
17	chr4:110916200-110918000	Weak transcription	Skeletal Muscle Female	skeletal muscle
18	chr4:110916200-110918000	Enhancers	GM12878-XiMat	blood
19	chr4:110917400-110918400	Enhancers	Primary hematopoietic stem cells short term culture	blood

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