Variant report

Variant	rs6022698
Chromosome Location	chr20:52346953-52346954
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	chr20:52345991..52347989-chr20:55837745..55840072,2	MCF-7	breast:

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs12479726	0.91[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs12480103	0.94[CEU][hapmap];0.84[AMR][1000 genomes]
rs2870276	0.94[CEU][hapmap];0.95[CHB][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs55993902	0.95[ASN][1000 genomes]
rs6013777	0.80[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs6022697	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6022701	0.80[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs6091737	1.00[CEU][hapmap];0.95[CHB][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6097549	0.94[CEU][hapmap];0.96[CHB][hapmap];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6097552	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6097553	0.84[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs6126927	0.84[CEU][hapmap]
rs62206459	0.84[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1055342	chr20:52126973-52352323	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	214 gene(s)	inside rSNPs	diseases
2	esv3412883	chr20:52176349-52393416	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	250 gene(s)	inside rSNPs	diseases
3	nsv834007	chr20:52213864-52404557	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	174 gene(s)	inside rSNPs	diseases
4	esv34060	chr20:52251863-52702186	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	296 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:52331200-52352600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr20:52341800-52354800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr20:52342000-52352200	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr20:52344600-52347200	Enhancers	HepG2	liver
5	chr20:52344800-52348000	Weak transcription	Placenta	Placenta
6	chr20:52345600-52347200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
7	chr20:52345600-52347600	Enhancers	Primary B cells from peripheral blood	blood
8	chr20:52345800-52347200	Enhancers	Fetal Thymus	thymus
9	chr20:52345800-52347200	Enhancers	Dnd41	blood
10	chr20:52346000-52347200	Enhancers	Primary T cells fromperipheralblood	blood
11	chr20:52346000-52347200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
12	chr20:52346000-52347600	Enhancers	Primary B cells from cord blood	blood
13	chr20:52346200-52347200	Enhancers	Duodenum Mucosa	Duodenum
14	chr20:52346400-52351600	Weak transcription	Primary monocytes fromperipheralblood	blood
15	chr20:52346400-52352800	Weak transcription	Spleen	Spleen
16	chr20:52346600-52347000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr20:52346600-52347400	Enhancers	GM12878-XiMat	blood
18	chr20:52346600-52349200	Weak transcription	Monocytes-CD14+_RO01746	blood
19	chr20:52346600-52350400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
20	chr20:52346600-52350600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr20:52346800-52352000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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