Variant report

Variant	rs11679956
Chromosome Location	chr2:48417282-48417283
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:48415132..48417658-chr2:48422363..48423907,2	MCF-7	breast:

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10495950	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11674475	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11676381	1.00[EUR][1000 genomes]
rs11676925	0.80[EUR][1000 genomes]
rs11677590	0.84[EUR][1000 genomes]
rs11680162	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11680404	0.86[EUR][1000 genomes]
rs11680657	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11681876	0.94[EUR][1000 genomes]
rs11683689	0.96[EUR][1000 genomes]
rs11687670	0.94[EUR][1000 genomes]
rs11687989	0.87[EUR][1000 genomes]
rs11689736	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11689818	0.87[EUR][1000 genomes]
rs11691493	1.00[EUR][1000 genomes]
rs11692660	0.81[EUR][1000 genomes]
rs11693267	1.00[EUR][1000 genomes]
rs11695799	0.84[EUR][1000 genomes]
rs11695923	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11889493	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13431982	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1586126	0.82[EUR][1000 genomes]
rs17037087	0.81[EUR][1000 genomes]
rs17324473	0.83[EUR][1000 genomes]
rs17324965	0.99[EUR][1000 genomes]
rs17325048	0.94[EUR][1000 genomes]
rs17325209	0.90[EUR][1000 genomes]
rs17396793	0.96[EUR][1000 genomes]
rs17397094	0.89[EUR][1000 genomes]
rs2014675	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2840147	0.91[EUR][1000 genomes]
rs34135365	1.00[EUR][1000 genomes]
rs4530419	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs55802119	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs56037709	0.85[EUR][1000 genomes]
rs58032869	0.91[EUR][1000 genomes]
rs58136909	0.90[EUR][1000 genomes]
rs6730166	0.99[EUR][1000 genomes]
rs6733558	0.99[EUR][1000 genomes]
rs6745620	0.81[EUR][1000 genomes]
rs6747738	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6759056	0.98[EUR][1000 genomes]
rs73927911	0.81[EUR][1000 genomes]
rs73927919	0.83[EUR][1000 genomes]
rs7561696	0.87[EUR][1000 genomes]
rs7571905	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7581510	0.94[EUR][1000 genomes]
rs7583719	0.98[EUR][1000 genomes]
rs952468	0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1009769	chr2:47972642-48509765	Active TSS Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv535680	chr2:47972642-48509765	Genic enhancers Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
3	nsv530831	chr2:48059709-48632317	Enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
4	nsv519831	chr2:48072855-48566031	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
5	nsv1003766	chr2:48102244-48559654	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
6	nsv581773	chr2:48277490-48443109	Flanking Active TSS Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
7	nsv1005241	chr2:48413134-48493182	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	esv2762552	chr2:48413146-48493182	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv457407	chr2:48414735-48493182	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv581774	chr2:48414735-48493182	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:48412000-48418600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr2:48415000-48423200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr2:48416000-48418200	Enhancers	Primary monocytes fromperipheralblood	blood
4	chr2:48416800-48417600	Enhancers	Primary B cells from peripheral blood	blood
5	chr2:48416800-48417600	Enhancers	Primary hematopoietic stem cells short term culture	blood
6	chr2:48416800-48417600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
7	chr2:48417000-48418200	Enhancers	Primary neutrophils fromperipheralblood	blood

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