Variant report

Variant	rs6856562
Chromosome Location	chr4:54195105-54195106
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	chr4:54188711..54191602-chr4:54194336..54196357,3	MCF-7	breast:

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10014030	0.81[EUR][1000 genomes]
rs11133258	0.81[ASN][1000 genomes]
rs11724062	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11725172	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12649948	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13130337	0.84[ASN][1000 genomes]
rs1383981	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1842658	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2200051	0.85[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs28832663	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34426398	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4328970	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4864749	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4864752	0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6554091	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6554092	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6554093	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6821113	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6852852	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7655632	0.80[ASN][1000 genomes]
rs7683984	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs900110	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9990771	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9991945	0.82[EUR][1000 genomes]
rs9998376	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[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	nsv1008593	chr4:54120297-54207769	Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:54169800-54216200	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr4:54170600-54230600	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr4:54172600-54215400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr4:54174200-54212600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr4:54180000-54212800	Weak transcription	Primary B cells from cord blood	blood
6	chr4:54187800-54212800	Weak transcription	Dnd41	blood
7	chr4:54188200-54213800	Weak transcription	Right Ventricle	heart
8	chr4:54188200-54218200	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr4:54188200-54231200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr4:54188400-54196000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
11	chr4:54188400-54205600	Weak transcription	Fetal Intestine Small	intestine
12	chr4:54188400-54212800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr4:54188600-54196800	Weak transcription	Small Intestine	intestine
14	chr4:54188600-54202800	Weak transcription	Primary T cells from cord blood	blood
15	chr4:54188600-54215400	Weak transcription	Primary T helper cells PMA-I stimulated	--
16	chr4:54189600-54212800	Weak transcription	Osteobl	bone
17	chr4:54189800-54206400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr4:54190000-54213800	Weak transcription	HUVEC	blood vessel
19	chr4:54192200-54212600	Weak transcription	NHDF-Ad	bronchial
20	chr4:54192200-54212800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr4:54193600-54195200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr4:54193800-54201000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr4:54193800-54203000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr4:54193800-54203800	Weak transcription	GM12878-XiMat	blood
25	chr4:54193800-54206200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
26	chr4:54193800-54212600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr4:54193800-54213400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr4:54194200-54204800	Weak transcription	Primary hematopoietic stem cells	blood
29	chr4:54194800-54195400	Active TSS	ES-WA7 Cell Line	embryonic stem cell

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