Variant report

Variant	rs13011374
Chromosome Location	chr2:190153347-190153348
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	chr2:190007040..190008928-chr2:190150245..190153733,35	MCF-7	breast:

Extended variants
information (count: 121 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:118)

rs_ID	r²[population]
rs10187060	0.85[CEU][hapmap];0.87[JPT][hapmap]
rs10755004	1.00[CEU][hapmap];0.87[JPT][hapmap]
rs10931400	0.83[EUR][1000 genomes]
rs10931404	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10931414	0.86[EUR][1000 genomes]
rs10931415	0.86[EUR][1000 genomes]
rs10931416	0.82[EUR][1000 genomes]
rs10931418	0.81[EUR][1000 genomes]
rs1112578	0.82[EUR][1000 genomes]
rs1157910	1.00[CEU][hapmap];0.80[CHB][hapmap];0.86[JPT][hapmap];0.88[YRI][hapmap]
rs11677066	0.81[EUR][1000 genomes]
rs11681286	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11688021	0.81[EUR][1000 genomes]
rs11691604	1.00[CHB][hapmap];0.91[JPT][hapmap];0.84[ASN][1000 genomes]
rs11695159	0.80[EUR][1000 genomes]
rs12104769	0.83[EUR][1000 genomes]
rs12105389	0.89[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12611950	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12612412	0.80[EUR][1000 genomes]
rs12613876	0.82[CEU][hapmap];0.87[JPT][hapmap]
rs12615823	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12616234	0.82[EUR][1000 genomes]
rs12618438	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12621035	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12621806	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12621939	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12623723	0.80[EUR][1000 genomes]
rs12990235	0.82[EUR][1000 genomes]
rs12991770	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12993719	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12995956	0.83[EUR][1000 genomes]
rs12997620	0.80[EUR][1000 genomes]
rs12999122	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12999996	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13004187	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13004722	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13005652	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13005821	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13010531	1.00[CEU][hapmap];0.83[JPT][hapmap]
rs13011485	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13012327	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13012649	0.82[EUR][1000 genomes]
rs13015283	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13016231	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13017413	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13019076	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13021508	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13022633	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13028967	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13029705	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13031211	0.92[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13031549	0.82[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs13032853	1.00[CEU][hapmap];0.80[CHB][hapmap];0.86[JPT][hapmap];0.88[YRI][hapmap]
rs13033421	0.83[EUR][1000 genomes]
rs1356162	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1356163	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1356164	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1356165	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1356167	0.89[CEU][hapmap];0.84[EUR][1000 genomes]
rs1356168	0.92[CEU][hapmap];0.84[EUR][1000 genomes]
rs1356977	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1399991	0.89[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1399992	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1402368	0.80[EUR][1000 genomes]
rs1515874	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1515876	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1520855	0.80[EUR][1000 genomes]
rs1520857	1.00[CEU][hapmap];0.86[JPT][hapmap];0.88[YRI][hapmap];0.80[EUR][1000 genomes]
rs1520859	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1520863	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1520864	0.82[EUR][1000 genomes]
rs1568334	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1878085	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1949484	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1949604	0.86[EUR][1000 genomes]
rs1949605	0.86[EUR][1000 genomes]
rs1965422	0.85[CEU][hapmap];0.94[CHB][hapmap];0.86[JPT][hapmap];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2138374	0.88[CEU][hapmap];0.87[EUR][1000 genomes]
rs2222256	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2351627	0.83[EUR][1000 genomes]
rs2351636	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35475196	0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35772309	0.84[ASN][1000 genomes]
rs3914778	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4233801	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4287797	0.81[EUR][1000 genomes]
rs4353589	0.84[EUR][1000 genomes]
rs4428040	0.82[EUR][1000 genomes]
rs4666774	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4667264	0.89[CEU][hapmap];0.83[EUR][1000 genomes]
rs4667265	0.89[CEU][hapmap];0.83[EUR][1000 genomes]
rs4667272	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4667274	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4667276	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4667277	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4667281	1.00[CEU][hapmap];0.80[CHB][hapmap];0.86[JPT][hapmap];0.88[YRI][hapmap]
rs4998559	0.89[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs60124911	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6434339	1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6708419	0.89[CEU][hapmap];0.83[EUR][1000 genomes]
rs6714088	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6719104	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6728055	0.81[EUR][1000 genomes]
rs6737071	0.84[EUR][1000 genomes]
rs6745108	0.81[EUR][1000 genomes]
rs7419276	0.85[CEU][hapmap];0.82[JPT][hapmap]
rs7419888	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7561002	0.89[CEU][hapmap]
rs7564611	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7576165	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7587147	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7587956	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7588453	0.81[EUR][1000 genomes]
rs7596592	0.81[EUR][1000 genomes]
rs7607133	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7609495	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs963738	1.00[CEU][hapmap];0.87[JPT][hapmap]
rs9679659	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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
3	nsv875614	chr2:190110841-190254758	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:190149200-190153800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr2:190149400-190153400	Enhancers	NHDF-Ad	bronchial
3	chr2:190149400-190153600	Enhancers	NH-A	brain
4	chr2:190149400-190153600	Enhancers	NHLF	lung
5	chr2:190149600-190153400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr2:190150200-190153400	Enhancers	HSMMtube	muscle
7	chr2:190150800-190158200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr2:190151000-190153600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr2:190151200-190153400	Enhancers	HUES64 Cell Line	embryonic stem cell
10	chr2:190151400-190153600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr2:190152000-190153400	Enhancers	HUES48 Cell Line	embryonic stem cell
12	chr2:190152000-190154000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr2:190152200-190153600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr2:190152200-190153600	Enhancers	iPS-20b Cell Line	embryonic stem cell
15	chr2:190152200-190153600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr2:190152400-190162400	Weak transcription	HMEC	breast
17	chr2:190152800-190153600	Enhancers	iPS-15b Cell Line	embryonic stem cell
18	chr2:190152800-190153600	Flanking Active TSS	Osteobl	bone
19	chr2:190153000-190153400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr2:190153000-190153600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr2:190153000-190153600	Enhancers	NHEK	skin
22	chr2:190153200-190153400	Enhancers	Muscle Satellite Cultured Cells	--
23	chr2:190153200-190153400	Enhancers	A549	lung
24	chr2:190153200-190153800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr2:190153200-190154400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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