Variant report

Variant	rs12344052
Chromosome Location	chr9:97655049-97655050
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	chr9:97654596..97658293-chr9:97673712..97678137,5	MCF-7	breast:
2	chr9:97654777..97656689-chr9:97679645..97682219,2	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10217737	1.00[CEU][hapmap];1.00[AFR][1000 genomes]
rs10512234	0.93[GIH][hapmap];1.00[TSI][hapmap]
rs10512236	0.93[GIH][hapmap];1.00[TSI][hapmap];0.82[EUR][1000 genomes]
rs10993349	1.00[CEU][hapmap]
rs10993350	1.00[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs10993374	1.00[AFR][1000 genomes]
rs10993381	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10993390	1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs10993391	1.00[ASW][hapmap];0.82[CEU][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs10993456	0.82[CEU][hapmap]
rs12336437	1.00[CHB][hapmap]
rs12337251	0.82[CEU][hapmap];1.00[AFR][1000 genomes]
rs12337992	0.93[GIH][hapmap];0.88[TSI][hapmap]
rs12339541	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12339639	0.82[CEU][hapmap]
rs12340107	0.88[TSI][hapmap]
rs12341814	0.93[GIH][hapmap];1.00[TSI][hapmap]
rs12342610	1.00[AFR][1000 genomes]
rs12343530	0.93[GIH][hapmap];1.00[TSI][hapmap]
rs12344157	0.93[GIH][hapmap];1.00[TSI][hapmap]
rs12346261	0.82[CEU][hapmap]
rs12349263	0.82[CEU][hapmap];1.00[AFR][1000 genomes]
rs16911713	0.93[GIH][hapmap];1.00[TSI][hapmap]
rs17356014	1.00[AFR][1000 genomes]
rs17679141	1.00[CHD][hapmap]
rs34032583	1.00[AFR][1000 genomes]
rs3802459	1.00[CHB][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933919	chr9:97619512-97919344	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	293 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97633400-97671800	Weak transcription	Esophagus	oesophagus
2	chr9:97638600-97661800	Weak transcription	Fetal Intestine Small	intestine
3	chr9:97648000-97657400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr9:97648400-97656400	Weak transcription	NH-A	brain
5	chr9:97648400-97657400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr9:97648600-97656000	Weak transcription	Liver	Liver
7	chr9:97650400-97655800	Weak transcription	Stomach Mucosa	stomach
8	chr9:97650600-97656000	Weak transcription	NHLF	lung
9	chr9:97651000-97655400	Weak transcription	Hela-S3	cervix
10	chr9:97653400-97662400	Weak transcription	Fetal Brain Male	brain
11	chr9:97653600-97656200	Weak transcription	HSMM	muscle
12	chr9:97654400-97655200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr9:97654400-97656000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr9:97654600-97655800	Enhancers	Pancreas	Pancrea
15	chr9:97654600-97656200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr9:97654600-97656800	Enhancers	NHEK	skin
17	chr9:97654600-97658800	Enhancers	Muscle Satellite Cultured Cells	--
18	chr9:97654800-97655600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr9:97654800-97655800	Enhancers	HMEC	breast
20	chr9:97654800-97656000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr9:97654800-97656200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr9:97655000-97655200	Genic enhancers	A549	lung
23	chr9:97655000-97656400	Weak transcription	Osteobl	bone

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