Variant report

Variant	rs2162217
Chromosome Location	chr15:56620278-56620279
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:56613331..56614994-chr15:56619251..56621411,2	MCF-7	breast:

Extended variants
information (count: 97 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:96)

rs_ID	r²[population]
rs11630363	0.91[CHB][hapmap]
rs11853962	0.82[CEU][hapmap];0.81[TSI][hapmap]
rs11855094	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11855937	0.82[CEU][hapmap];0.83[TSI][hapmap]
rs11857306	0.82[CEU][hapmap];0.89[TSI][hapmap]
rs12592361	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12900678	0.95[CHB][hapmap]
rs12901182	0.82[CEU][hapmap]
rs12905782	0.95[CHB][hapmap];0.81[JPT][hapmap]
rs12908839	0.82[CEU][hapmap]
rs1402171	0.80[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1426070	0.81[TSI][hapmap]
rs1477588	0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1477590	0.91[CHB][hapmap];0.81[JPT][hapmap]
rs1549452	0.95[CHB][hapmap]
rs16976890	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.87[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17238691	0.85[CEU][hapmap]
rs17819438	0.95[CHB][hapmap]
rs1863425	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1946364	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1961489	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1991266	0.91[AFR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2098897	0.88[AFR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2114185	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2162218	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2217059	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2249090	0.87[CHB][hapmap];0.81[JPT][hapmap]
rs2303441	0.95[CHB][hapmap]
rs2414466	0.92[CEU][hapmap]
rs2460650	0.95[CHB][hapmap]
rs2465407	0.82[ASN][1000 genomes]
rs2465968	0.89[AFR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2554284	0.80[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2554285	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2554287	0.82[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.91[GIH][hapmap];0.94[JPT][hapmap];0.91[TSI][hapmap];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2554288	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2682013	0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2682015	0.92[ASN][1000 genomes]
rs2682016	0.96[ASN][1000 genomes]
rs2682017	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2682024	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2682025	0.91[AFR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2682026	0.91[AFR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2682029	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2682038	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2682041	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2682051	0.91[CHB][hapmap]
rs2682053	0.94[CHB][hapmap]
rs2713899	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2713910	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2713916	0.88[ASN][1000 genomes]
rs2713917	0.84[ASN][1000 genomes]
rs2713919	0.91[AFR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2713921	0.91[AFR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2713933	0.91[CHB][hapmap]
rs2713936	0.90[CHB][hapmap]
rs2718904	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2718910	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2718914	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2718921	0.81[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2718922	0.80[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2718923	0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2725840	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2725850	0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2725851	0.80[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2725852	0.80[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2725853	0.80[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2725854	0.91[CHB][hapmap]
rs2725855	0.97[ASN][1000 genomes]
rs2725856	0.82[CEU][hapmap];0.91[CHB][hapmap];0.97[CHD][hapmap];0.91[GIH][hapmap];0.87[JPT][hapmap];0.87[TSI][hapmap];0.80[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2725857	0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2725859	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2725861	0.88[AFR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2725863	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2725864	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28836203	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2912185	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2947021	0.95[CHB][hapmap]
rs35357024	0.83[EUR][1000 genomes]
rs3784552	0.85[CHB][hapmap]
rs3817406	0.95[CHB][hapmap]
rs3985759	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4774854	0.82[CEU][hapmap]
rs4774856	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62047371	0.82[ASN][1000 genomes]
rs6493855	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6493856	0.90[CHB][hapmap]
rs6493858	0.91[CHB][hapmap];0.92[YRI][hapmap]
rs7163807	0.81[CEU][hapmap]
rs7170307	0.81[JPT][hapmap]
rs7173861	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7181235	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7182758	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs795786	1.00[CEU][hapmap];0.86[CHB][hapmap];0.98[CHD][hapmap];0.95[GIH][hapmap];0.86[JPT][hapmap];0.98[TSI][hapmap];0.87[EUR][1000 genomes]
rs795791	0.89[ASW][hapmap];0.88[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.93[YRI][hapmap];0.83[ASN][1000 genomes]
rs795800	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];0.96[MEX][hapmap];0.98[TSI][hapmap];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]

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	nsv833019	chr15:56486029-56649933	Transcr. at gene 5' and 3' Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:56613400-56623400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr15:56619400-56621400	Enhancers	Placenta	Placenta
3	chr15:56619600-56620400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr15:56619600-56620400	Flanking Active TSS	NHEK	skin
5	chr15:56619600-56620800	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr15:56619600-56621200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr15:56619800-56620400	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr15:56619800-56620400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr15:56619800-56620400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr15:56619800-56620600	Enhancers	iPS-15b Cell Line	embryonic stem cell
11	chr15:56619800-56621200	Enhancers	Esophagus	oesophagus
12	chr15:56620000-56621200	Enhancers	HMEC	breast
13	chr15:56620200-56620400	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr15:56620200-56620800	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr15:56620200-56620800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin

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