Variant report

Variant	rs11762357
Chromosome Location	chr7:140801429-140801430
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	chr7:140774318..140775981-chr7:140800025..140801816,2	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11767331	0.96[EUR][1000 genomes]
rs1860752	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2365575	0.88[ASN][1000 genomes]
rs4726263	0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs491554	0.93[ASN][1000 genomes]
rs498933	0.94[ASW][hapmap];0.94[CHB][hapmap];0.88[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.85[TSI][hapmap];0.93[ASN][1000 genomes]
rs511001	0.93[ASN][1000 genomes]
rs534348	0.93[ASN][1000 genomes]
rs536809	0.90[ASN][1000 genomes]
rs553046	0.93[ASN][1000 genomes]
rs55949610	0.92[ASN][1000 genomes]
rs560981	0.92[ASN][1000 genomes]
rs6464278	0.89[CHB][hapmap];0.90[JPT][hapmap];0.83[YRI][hapmap]
rs6464330	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.83[TSI][hapmap];0.97[ASN][1000 genomes]
rs6944492	0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6960603	0.89[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6962233	0.94[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs6967482	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs722219	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7778658	0.94[ASN][1000 genomes]
rs7805034	0.92[ASN][1000 genomes]
rs7806026	1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs7810146	0.97[ASN][1000 genomes]
rs801157	0.93[ASN][1000 genomes]
rs801158	0.93[ASN][1000 genomes]
rs9640323	0.92[ASN][1000 genomes]
rs9886312	0.83[ASW][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv889248	chr7:140754785-140809205	Enhancers Bivalent Enhancer Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	esv3336433	chr7:140783089-140892541	Enhancers Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs11762357	TMEM178B	cis	Esophagus Mucosa	GTEx
rs11762357	HIPK2	cis	parietal	SCAN
rs11762357	ADCK2	cis	cerebellum	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:140795000-140801600	Weak transcription	Fetal Brain Female	brain
2	chr7:140796000-140802400	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr7:140796000-140803800	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr7:140796200-140803600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr7:140800600-140801600	Enhancers	Pancreatic Islets	Pancreatic Islet
6	chr7:140801200-140802400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr7:140801200-140803200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr7:140801400-140802800	Enhancers	Brain Germinal Matrix	brain
9	chr7:140801400-140803200	Enhancers	Fetal Brain Male	brain

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