Variant report

Variant	rs10779923
Chromosome Location	chr2:39129522-39129523
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	chr2:38975072..38976872-chr2:39126935..39129724,2	K562	blood:
2	chr2:39116218..39118780-chr2:39126799..39129645,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000115875	Chromatin interaction
ENSG00000214694	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 7 )

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10173240	0.85[JPT][hapmap]
rs10204999	0.86[ASN][1000 genomes]
rs11124654	0.80[ASN][1000 genomes]
rs11124655	0.85[ASN][1000 genomes]
rs12233002	0.82[CEU][hapmap]
rs12617734	0.82[ASN][1000 genomes]
rs12621073	0.83[ASN][1000 genomes]
rs12623330	0.86[JPT][hapmap]
rs12712621	0.93[JPT][hapmap]
rs12712625	0.83[CHB][hapmap];0.81[CHD][hapmap];0.95[GIH][hapmap];0.80[JPT][hapmap];0.96[MEX][hapmap];0.87[YRI][hapmap]
rs12712626	0.87[GIH][hapmap];0.91[MEX][hapmap]
rs12712627	0.83[CHB][hapmap];0.81[CHD][hapmap];0.95[GIH][hapmap];0.80[JPT][hapmap];0.96[MEX][hapmap];0.87[YRI][hapmap]
rs13029388	0.83[CHB][hapmap];0.87[JPT][hapmap];0.87[YRI][hapmap]
rs13029406	0.86[JPT][hapmap]
rs13383541	0.86[JPT][hapmap]
rs1530852	0.86[JPT][hapmap]
rs1530853	0.86[JPT][hapmap]
rs1868867	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1901289	0.88[CHB][hapmap];0.86[CHD][hapmap];0.95[GIH][hapmap];0.86[JPT][hapmap];0.91[MEX][hapmap];0.93[YRI][hapmap];0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs1979142	0.85[JPT][hapmap]
rs2060743	0.89[CHB][hapmap]
rs3099941	0.84[CHD][hapmap]
rs3099945	0.82[GIH][hapmap]
rs3099956	0.89[CEU][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3099959	0.94[CHB][hapmap]
rs3112159	0.81[GIH][hapmap]
rs3112163	0.84[GIH][hapmap]
rs3112175	0.92[EUR][1000 genomes]
rs373300	0.88[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.97[ASN][1000 genomes]
rs3770681	0.86[JPT][hapmap]
rs389023	0.88[ASN][1000 genomes]
rs390008	0.89[AFR][1000 genomes];0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs3923144	0.82[GIH][hapmap]
rs4133043	0.87[AMR][1000 genomes]
rs4265996	0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs4670267	0.94[CHB][hapmap];0.86[CHD][hapmap];0.86[JPT][hapmap];0.92[LWK][hapmap];0.91[MKK][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs4670899	0.89[CHB][hapmap];0.87[GIH][hapmap]
rs6544180	0.80[ASN][1000 genomes]
rs6706091	0.81[ASW][hapmap];0.89[CHB][hapmap];0.86[JPT][hapmap];0.86[YRI][hapmap];0.89[ASN][1000 genomes]
rs6706186	0.97[ASN][1000 genomes]
rs6744514	0.88[CHB][hapmap];0.86[YRI][hapmap]
rs7419616	0.86[JPT][hapmap]
rs7565111	0.93[CEU][hapmap];0.86[JPT][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7586929	0.85[AMR][1000 genomes]
rs7589162	0.86[JPT][hapmap]
rs7598922	0.95[GIH][hapmap];0.86[JPT][hapmap];0.96[MEX][hapmap];0.87[YRI][hapmap]
rs9808136	0.88[CHB][hapmap];0.85[JPT][hapmap];0.84[YRI][hapmap]
rs986019	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs10779923	MFN1	trans	parietal	SCAN
rs10779923	MORN2	cis	parietal	SCAN
rs10779923	DHX57	cis	cerebellum	SCAN
rs10779923	DHX57	cis	multi-tissue	Pritchard
rs10779923	DHX57	cis	parietal	SCAN
rs10779923	ITGB1	trans	parietal	SCAN
rs10779923	DHX57	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:39110200-39186800	Weak transcription	Stomach Smooth Muscle	stomach
2	chr2:39120800-39132400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr2:39126800-39134000	Weak transcription	Aorta	Aorta

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