Variant report

Variant	rs10168625
Chromosome Location	chr2:190009598-190009599
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	chr2:190008421..190011287-chr2:190151088..190152689,2	MCF-7	breast:

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10165488	1.00[AMR][1000 genomes]
rs10166867	1.00[AMR][1000 genomes]
rs10176299	1.00[AMR][1000 genomes]
rs10180374	1.00[AMR][1000 genomes]
rs10182790	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs10182959	1.00[AMR][1000 genomes]
rs10190048	1.00[AMR][1000 genomes]
rs10193357	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10195176	1.00[AMR][1000 genomes]
rs10196855	1.00[YRI][hapmap]
rs10202897	1.00[AMR][1000 genomes]
rs10203522	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs10210715	1.00[AMR][1000 genomes]
rs13382234	1.00[AMR][1000 genomes]
rs13383366	1.00[YRI][hapmap]
rs13383588	1.00[YRI][hapmap]
rs13385828	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs13389070	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13392441	1.00[AMR][1000 genomes]
rs13392501	1.00[YRI][hapmap]
rs13395385	1.00[AMR][1000 genomes]
rs13396958	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs13401632	1.00[AMR][1000 genomes]
rs13405825	1.00[AMR][1000 genomes]
rs13407402	1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13408124	1.00[AMR][1000 genomes]
rs13411962	1.00[AMR][1000 genomes]
rs13413060	1.00[YRI][hapmap]
rs13416565	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs13419998	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13420752	1.00[AMR][1000 genomes]
rs13421412	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs13423791	1.00[AMR][1000 genomes]
rs13429781	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs13430867	1.00[AMR][1000 genomes]
rs13431520	1.00[AMR][1000 genomes]
rs13433016	1.00[AMR][1000 genomes]
rs28712861	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28763874	1.00[AMR][1000 genomes]
rs28763875	1.00[AMR][1000 genomes]
rs59459440	1.00[AMR][1000 genomes]
rs6712385	1.00[AMR][1000 genomes]
rs6732228	1.00[AMR][1000 genomes]
rs73981448	1.00[AMR][1000 genomes]
rs73981451	1.00[AMR][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	nsv533029	chr2:189812229-190554339	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv875613	chr2:189999011-190324685	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:189968600-190012000	Weak transcription	Fetal Muscle Trunk	muscle
2	chr2:189981400-190014800	Weak transcription	Fetal Stomach	stomach
3	chr2:189984000-190016800	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr2:189993800-190017000	Weak transcription	Ovary	ovary
5	chr2:189994200-190010600	Weak transcription	Rectal Smooth Muscle	rectum
6	chr2:190000400-190013600	Weak transcription	Left Ventricle	heart
7	chr2:190003600-190014600	Weak transcription	Colon Smooth Muscle	Colon
8	chr2:190006600-190011800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr2:190007800-190009600	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr2:190007800-190010600	Strong transcription	HSMM	muscle
11	chr2:190008000-190010000	Enhancers	Fetal Lung	lung
12	chr2:190008000-190014800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr2:190008400-190009800	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr2:190008600-190009800	Strong transcription	NH-A	brain
15	chr2:190008800-190009600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr2:190008800-190009600	Enhancers	Aorta	Aorta
17	chr2:190008800-190009600	Enhancers	Osteobl	bone
18	chr2:190008800-190009800	Enhancers	NHLF	lung
19	chr2:190008800-190010000	Enhancers	ES-I3 Cell Line	embryonic stem cell
20	chr2:190009000-190009800	Genic enhancers	Muscle Satellite Cultured Cells	--
21	chr2:190009000-190009800	Enhancers	Adipose Nuclei	Adipose
22	chr2:190009000-190010200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
23	chr2:190009000-190011400	Weak transcription	HSMMtube	muscle
24	chr2:190009000-190012000	Enhancers	A549	lung
25	chr2:190009000-190016000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr2:190009200-190009600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr2:190009200-190010200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr2:190009200-190012200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr2:190009200-190014400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr2:190009400-190009600	Flanking Active TSS	NHDF-Ad	bronchial
31	chr2:190009400-190009800	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr2:190009400-190009800	Enhancers	Fetal Muscle Leg	muscle
33	chr2:190009400-190014800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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