Variant report

Variant	rs10955409
Chromosome Location	chr8:107022586-107022587
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:107018956..107021077-chr8:107021331..107023976,2	MCF-7	breast:

Extended variants
information (count: 124 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:122)

rs_ID	r²[population]
rs10086055	0.99[ASN][1000 genomes]
rs10092927	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1032545	0.93[ASN][1000 genomes]
rs10505091	0.92[ASN][1000 genomes]
rs10808408	0.93[ASN][1000 genomes]
rs10955407	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10955408	0.99[ASN][1000 genomes]
rs11781234	0.93[ASN][1000 genomes]
rs11781331	0.83[ASN][1000 genomes]
rs11782609	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11786829	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11997513	0.85[EUR][1000 genomes]
rs12541635	0.84[EUR][1000 genomes]
rs12542361	0.93[ASN][1000 genomes]
rs12542647	0.90[CHB][hapmap]
rs12546875	0.93[ASN][1000 genomes]
rs12674846	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12675478	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12676365	0.90[CHB][hapmap]
rs12677927	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12680670	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12681183	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13277300	0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13439705	0.91[ASN][1000 genomes]
rs1353449	0.85[CHB][hapmap]
rs1353450	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1366969	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs1429676	0.96[EUR][1000 genomes]
rs1429681	0.99[ASN][1000 genomes]
rs1496180	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1496181	0.99[ASN][1000 genomes]
rs1496182	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1496183	0.99[ASN][1000 genomes]
rs1603357	0.92[ASN][1000 genomes]
rs1603363	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16873989	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1817939	0.99[ASN][1000 genomes]
rs1835267	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1835268	0.96[ASN][1000 genomes]
rs1896918	0.84[EUR][1000 genomes]
rs1896919	0.84[EUR][1000 genomes]
rs2029878	0.99[ASN][1000 genomes]
rs2029879	0.99[ASN][1000 genomes]
rs2029880	0.99[ASN][1000 genomes]
rs2029881	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2029882	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2059943	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2115703	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2132471	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2163124	0.99[ASN][1000 genomes]
rs2172997	0.93[ASN][1000 genomes]
rs2217391	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2345068	0.93[ASN][1000 genomes]
rs2345070	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2881037	0.85[EUR][1000 genomes]
rs34177605	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34872724	0.99[ASN][1000 genomes]
rs4416800	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4734126	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4734128	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4734892	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs4734893	1.00[CEU][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4734894	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4734895	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4734896	0.87[EUR][1000 genomes]
rs4734897	0.87[EUR][1000 genomes]
rs55639043	0.99[ASN][1000 genomes]
rs55729609	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55762012	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55811614	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56352125	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56402027	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57607757	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs57715289	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs59123253	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59858392	0.93[ASN][1000 genomes]
rs60482457	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62525696	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62525736	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62527360	0.99[ASN][1000 genomes]
rs62527363	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62527373	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62527374	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62527375	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62527376	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62527400	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62527405	0.99[ASN][1000 genomes]
rs6415444	0.96[ASN][1000 genomes]
rs6469023	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6469026	0.93[ASN][1000 genomes]
rs6469027	0.91[ASN][1000 genomes]
rs6469028	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6469030	0.99[ASN][1000 genomes]
rs6469031	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6469032	0.99[ASN][1000 genomes]
rs6469038	0.82[CHD][hapmap]
rs6984393	0.92[ASN][1000 genomes]
rs6987512	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6997487	0.91[ASN][1000 genomes]
rs6999580	0.99[ASN][1000 genomes]
rs7003520	0.99[ASN][1000 genomes]
rs7006651	0.84[ASN][1000 genomes]
rs7008840	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7012379	0.88[ASN][1000 genomes]
rs7013082	0.85[CHB][hapmap]
rs72676052	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs727419	0.82[CHD][hapmap]
rs7460291	0.99[ASN][1000 genomes]
rs7464413	0.87[EUR][1000 genomes]
rs7812766	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7814776	0.85[CHB][hapmap]
rs7815337	0.96[ASN][1000 genomes]
rs7819043	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7819501	0.93[ASN][1000 genomes]
rs7829054	1.00[ASN][1000 genomes]
rs7830426	0.99[ASN][1000 genomes]
rs7836196	0.93[ASN][1000 genomes]
rs7839195	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7839239	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7843166	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7846149	0.99[ASN][1000 genomes]
rs7846262	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv1021369	chr8:106493317-107243322	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv611840	chr8:106913294-107265915	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10955409	FZD7	trans	parietal	SCAN
rs10955409	FZD6	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:107013000-107023400	Weak transcription	A549	lung
2	chr8:107013800-107031000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr8:107022000-107024800	Enhancers	HUVEC	blood vessel
4	chr8:107022200-107023200	Enhancers	NH-A	brain
5	chr8:107022400-107022600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr8:107022400-107023200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr8:107022400-107023200	Enhancers	Osteobl	bone
8	chr8:107022400-107025000	Enhancers	Muscle Satellite Cultured Cells	--
9	chr8:107022400-107027400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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