Variant report

Variant	rs10812542
Chromosome Location	chr9:27248644-27248645
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	chr9:27247423..27248703-chr9:27275999..27276820,3	MCF-7	breast:

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10757642	0.94[ASN][1000 genomes]
rs10757643	0.94[ASN][1000 genomes]
rs10757644	0.94[ASN][1000 genomes]
rs10812540	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10812541	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10812558	0.85[ASN][1000 genomes]
rs10812559	0.85[ASN][1000 genomes]
rs10967785	0.90[ASN][1000 genomes]
rs10967789	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10967791	0.94[ASN][1000 genomes]
rs10967792	1.00[ASN][1000 genomes]
rs10967793	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10967794	1.00[ASN][1000 genomes]
rs10967823	0.87[ASN][1000 genomes]
rs10967834	0.85[ASN][1000 genomes]
rs1126107	0.89[MEX][hapmap]
rs11515104	0.83[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs11515105	0.81[AMR][1000 genomes]
rs12236801	1.00[ASN][1000 genomes]
rs12238077	1.00[ASN][1000 genomes]
rs12340759	0.90[ASN][1000 genomes]
rs12349915	0.90[ASN][1000 genomes]
rs12349937	0.96[ASN][1000 genomes]
rs12350012	0.90[ASN][1000 genomes]
rs2152067	0.82[CEU][hapmap];0.81[AMR][1000 genomes]
rs2273716	0.82[CHB][hapmap];1.00[CHD][hapmap];0.88[ASN][1000 genomes]
rs2984157	0.96[ASN][1000 genomes]
rs474135	0.81[AMR][1000 genomes]
rs494726	0.81[AMR][1000 genomes]
rs503656	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs543745	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs550190	0.91[CEU][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs550982	0.91[CEU][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.81[AMR][1000 genomes]
rs57234698	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs573918	0.81[AMR][1000 genomes]
rs574033	0.82[ASW][hapmap];0.91[CEU][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs587800	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs622381	0.91[CEU][hapmap]
rs62542576	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs667250	0.81[AMR][1000 genomes]
rs681707	0.91[CEU][hapmap];0.94[MEX][hapmap];0.88[TSI][hapmap]
rs681754	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs683611	0.81[AMR][1000 genomes]
rs7027020	0.85[ASN][1000 genomes]
rs7031650	0.94[ASN][1000 genomes]
rs7037246	0.91[CEU][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.83[EUR][1000 genomes]
rs7037940	0.90[ASN][1000 genomes]
rs7041267	0.90[ASN][1000 genomes]
rs7042665	0.94[ASN][1000 genomes]
rs7042745	0.94[ASN][1000 genomes]
rs7043508	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72614300	0.84[ASN][1000 genomes]
rs72614302	1.00[ASN][1000 genomes]
rs72617305	1.00[ASN][1000 genomes]
rs7469836	0.96[ASN][1000 genomes]
rs857	0.91[CEU][hapmap];0.85[GIH][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1016733	chr9:27073650-27264576	Enhancers Weak transcription Genic enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1022313	chr9:27083369-27250505	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1017802	chr9:27088160-27262682	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1019104	chr9:27088160-27358206	Enhancers Weak transcription Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
5	nsv892864	chr9:27176554-27296705	Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv1018864	chr9:27195840-27294815	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	esv2761268	chr9:27195852-27291261	Enhancers Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv466336	chr9:27196119-27292703	Enhancers ZNF genes & repeats Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
9	nsv471294	chr9:27196119-27292703	Strong transcription Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
10	nsv613947	chr9:27196119-27292703	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
11	nsv892865	chr9:27217992-27258216	Weak transcription ZNF genes & repeats Enhancers Strong transcription Genic enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
12	nsv613948	chr9:27232748-27250868	Enhancers ZNF genes & repeats Weak transcription	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
13	nsv1018258	chr9:27234184-27292709	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
14	nsv1019688	chr9:27234184-27356374	Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
15	esv2764143	chr9:27248177-27248644	Enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
16	nsv1025043	chr9:27248177-27264576	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:27247600-27249400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr9:27247800-27249000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr9:27247800-27249200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr9:27247800-27249200	Enhancers	NHEK	skin
5	chr9:27247800-27249400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr9:27247800-27249400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr9:27247800-27249400	Enhancers	Muscle Satellite Cultured Cells	--
8	chr9:27247800-27249400	Enhancers	Osteobl	bone
9	chr9:27248000-27248800	Enhancers	Hela-S3	cervix
10	chr9:27248200-27249400	Enhancers	HSMM	muscle
11	chr9:27248400-27249200	Enhancers	Placenta Amnion	Placenta Amnion

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