Variant report

Variant	rs16862668
Chromosome Location	chr1:169714161-169714162
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	chr1:169707608..169709249-chr1:169711620..169714505,2	MCF-7	breast:

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10489171	0.94[CHB][hapmap];0.90[JPT][hapmap]
rs10919223	0.93[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs10919229	0.93[CHB][hapmap]
rs12024211	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12025244	0.94[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs12025442	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12025581	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12025648	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12029611	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12029669	0.80[CHB][hapmap];0.82[JPT][hapmap];0.93[AMR][1000 genomes]
rs12031046	0.93[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs12037112	0.93[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12038016	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12038307	0.81[ASN][1000 genomes]
rs12042023	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12042277	0.83[ASN][1000 genomes]
rs12043338	1.00[CHB][hapmap];0.91[JPT][hapmap];0.93[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12044932	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12046689	1.00[CHB][hapmap];0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs12047464	0.94[CHB][hapmap];0.95[JPT][hapmap]
rs12047936	0.94[CHB][hapmap];0.95[JPT][hapmap]
rs12239757	0.94[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs16828193	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs16862714	0.93[CHB][hapmap];0.95[JPT][hapmap]
rs2179172	1.00[CHB][hapmap];0.90[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2272913	0.93[CHB][hapmap];0.95[JPT][hapmap]
rs28477509	0.81[ASN][1000 genomes]
rs35296671	0.81[ASN][1000 genomes]
rs3766133	0.83[ASN][1000 genomes]
rs3766136	0.93[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs3766149	0.94[CHB][hapmap];0.95[JPT][hapmap]
rs3766153	0.93[CHB][hapmap];0.95[JPT][hapmap]
rs3917443	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58583023	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58910844	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72637234	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72637235	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72637237	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs72637238	1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs72637239	0.81[ASN][1000 genomes]
rs72637240	0.81[ASN][1000 genomes]
rs72637241	0.81[ASN][1000 genomes]
rs72637242	0.81[ASN][1000 genomes]
rs9659149	0.93[CHB][hapmap];0.95[JPT][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	esv3451367	chr1:169630075-169976964	Strong transcription Flanking Active TSS Genic enhancers Enhancers Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169711000-169714200	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr1:169711000-169714200	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr1:169711000-169714200	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr1:169711000-169714600	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr1:169711200-169714600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr1:169711200-169714600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr1:169711400-169714400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr1:169713600-169714200	Enhancers	HepG2	liver
9	chr1:169713800-169714400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr1:169713800-169714400	Enhancers	Liver	Liver
11	chr1:169713800-169714400	Enhancers	Left Ventricle	heart
12	chr1:169713800-169715200	Enhancers	HUVEC	blood vessel
13	chr1:169714000-169714200	Enhancers	NH-A	brain
14	chr1:169714000-169714600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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