Variant report

Variant	rs7356818
Chromosome Location	chr6:128848256-128848257
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:128848166..128851056-chr6:128858562..128860170,2	MCF-7	breast:

Extended variants
information (count: 130 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:125)

rs_ID	r²[population]
rs10085245	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10085247	1.00[ASN][1000 genomes]
rs10085248	1.00[ASN][1000 genomes]
rs1012629	1.00[CHD][hapmap]
rs10223535	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10872331	0.94[CEU][hapmap];1.00[CHD][hapmap];0.89[TSI][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11154439	0.94[CEU][hapmap];1.00[CHD][hapmap];0.89[TSI][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11154440	0.81[CEU][hapmap];1.00[ASN][1000 genomes]
rs11751628	1.00[ASN][1000 genomes]
rs11752256	1.00[ASN][1000 genomes]
rs11753496	1.00[ASN][1000 genomes]
rs11756545	1.00[CHD][hapmap]
rs11758545	1.00[ASN][1000 genomes]
rs11758690	1.00[ASN][1000 genomes]
rs11963575	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12524679	1.00[ASN][1000 genomes]
rs12525214	1.00[ASN][1000 genomes]
rs12526634	1.00[ASN][1000 genomes]
rs12526667	1.00[ASN][1000 genomes]
rs12527086	1.00[ASN][1000 genomes]
rs12527265	0.81[CEU][hapmap];1.00[ASN][1000 genomes]
rs12529229	1.00[ASN][1000 genomes]
rs12529511	1.00[ASN][1000 genomes]
rs12529947	1.00[ASN][1000 genomes]
rs12529948	1.00[ASN][1000 genomes]
rs1341584	1.00[ASN][1000 genomes]
rs1341585	1.00[ASN][1000 genomes]
rs13437323	1.00[ASN][1000 genomes]
rs1417896	0.81[CEU][hapmap]
rs1572964	1.00[ASN][1000 genomes]
rs17055952	1.00[ASN][1000 genomes]
rs17056043	1.00[ASN][1000 genomes]
rs17364020	1.00[CHD][hapmap];1.00[ASN][1000 genomes]
rs17364090	1.00[CHD][hapmap];1.00[ASN][1000 genomes]
rs17364118	1.00[CHD][hapmap];1.00[ASN][1000 genomes]
rs17364153	1.00[ASN][1000 genomes]
rs17460940	1.00[CHD][hapmap]
rs17461290	1.00[CHD][hapmap]
rs17461370	1.00[CHD][hapmap];1.00[ASN][1000 genomes]
rs17461759	0.81[CEU][hapmap];1.00[ASN][1000 genomes]
rs1935131	1.00[ASN][1000 genomes]
rs2144376	0.81[CEU][hapmap]
rs2326702	1.00[CHD][hapmap];0.88[TSI][hapmap];1.00[ASN][1000 genomes]
rs55988836	1.00[ASN][1000 genomes]
rs57922933	1.00[ASN][1000 genomes]
rs62425737	1.00[ASN][1000 genomes]
rs62425738	1.00[ASN][1000 genomes]
rs62425739	1.00[ASN][1000 genomes]
rs62425740	1.00[ASN][1000 genomes]
rs62425742	1.00[ASN][1000 genomes]
rs62425743	1.00[ASN][1000 genomes]
rs62425744	1.00[ASN][1000 genomes]
rs62426790	1.00[ASN][1000 genomes]
rs62426791	1.00[ASN][1000 genomes]
rs62426792	1.00[ASN][1000 genomes]
rs62426793	1.00[ASN][1000 genomes]
rs62426794	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs62426795	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426796	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs62426797	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426798	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs62426799	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426800	1.00[ASN][1000 genomes]
rs62426801	1.00[ASN][1000 genomes]
rs62426804	1.00[ASN][1000 genomes]
rs62426805	1.00[ASN][1000 genomes]
rs62426806	1.00[ASN][1000 genomes]
rs62426840	1.00[ASN][1000 genomes]
rs62426841	1.00[ASN][1000 genomes]
rs62426842	1.00[ASN][1000 genomes]
rs62426844	1.00[ASN][1000 genomes]
rs62426846	1.00[ASN][1000 genomes]
rs62426847	1.00[ASN][1000 genomes]
rs62426848	1.00[ASN][1000 genomes]
rs62426849	1.00[ASN][1000 genomes]
rs62426850	1.00[ASN][1000 genomes]
rs62426851	1.00[ASN][1000 genomes]
rs62426853	1.00[ASN][1000 genomes]
rs62427780	1.00[ASN][1000 genomes]
rs62427781	1.00[ASN][1000 genomes]
rs6569529	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6569535	0.81[CEU][hapmap]
rs6923822	0.89[TSI][hapmap]
rs714782	1.00[ASN][1000 genomes]
rs717617	0.86[CEU][hapmap]
rs7356823	0.81[CEU][hapmap]
rs7356912	1.00[ASN][1000 genomes]
rs7454742	1.00[ASN][1000 genomes]
rs766306	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7738739	1.00[ASN][1000 genomes]
rs7739600	1.00[ASN][1000 genomes]
rs7748742	1.00[ASN][1000 genomes]
rs7751094	1.00[ASN][1000 genomes]
rs7751265	0.81[CEU][hapmap]
rs7752487	1.00[ASN][1000 genomes]
rs7760287	1.00[ASN][1000 genomes]
rs7760572	1.00[ASN][1000 genomes]
rs7760682	1.00[ASN][1000 genomes]
rs7765212	1.00[ASN][1000 genomes]
rs7768240	0.91[YRI][hapmap];1.00[ASN][1000 genomes]
rs7771701	1.00[ASN][1000 genomes]
rs9321122	0.86[AFR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9375578	0.81[CEU][hapmap]
rs9482892	0.83[CEU][hapmap];1.00[ASN][1000 genomes]
rs9482893	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9482897	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9482902	1.00[ASN][1000 genomes]
rs9482904	1.00[ASN][1000 genomes]
rs9491981	0.80[YRI][hapmap]
rs9491988	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9491995	0.80[YRI][hapmap]
rs9492000	1.00[ASN][1000 genomes]
rs9492001	0.88[TSI][hapmap]
rs9492002	0.81[CEU][hapmap];1.00[CHD][hapmap];0.91[YRI][hapmap];1.00[ASN][1000 genomes]
rs9492004	1.00[ASN][1000 genomes]
rs9492005	1.00[ASN][1000 genomes]
rs9492008	1.00[ASN][1000 genomes]
rs9492011	1.00[ASN][1000 genomes]
rs9492013	1.00[ASN][1000 genomes]
rs9492014	1.00[ASN][1000 genomes]
rs9492016	0.80[YRI][hapmap]
rs9492017	1.00[ASN][1000 genomes]
rs9492018	1.00[ASN][1000 genomes]
rs9492020	1.00[ASN][1000 genomes]
rs9492021	1.00[CHD][hapmap];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1033443	chr6:128306654-128899203	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv538440	chr6:128306654-128899203	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv1020071	chr6:128579774-129048919	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv538441	chr6:128579774-129048919	Flanking Active TSS Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv830800	chr6:128710631-128878435	Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	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
rs7356818	SAMD3	cis	parietal	SCAN
rs7356818	C6orf174	cis	parietal	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128842600-128848800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:128842800-128853800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr6:128844000-128859200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr6:128846800-128848600	Weak transcription	HepG2	liver
5	chr6:128847400-128853200	Weak transcription	Fetal Brain Female	brain
6	chr6:128847800-128848800	Enhancers	ES-I3 Cell Line	embryonic stem cell
7	chr6:128848000-128848400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr6:128848200-128848400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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