Variant report

Variant	rs11001570
Chromosome Location	chr10:54080034-54080035
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:54065577..54083492-chr10:54193846..54218961,120	MCF-7	breast:
2	chr10:54077756..54080731-chr10:54080779..54082733,3	MCF-7	breast:
3	chr10:54071324..54082180-chr10:54192987..54217560,81	MCF-7	breast:
4	chr10:54068768..54071357-chr10:54075695..54080723,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000231131	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10762689	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10824351	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11001548	0.94[ASN][1000 genomes]
rs11001553	0.87[ASN][1000 genomes]
rs11001580	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11001604	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1590105	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1991392	0.93[ASN][1000 genomes]
rs1991393	1.00[ASN][1000 genomes]
rs1991394	1.00[ASN][1000 genomes]
rs2288335	1.00[ASN][1000 genomes]
rs41281546	0.98[ASN][1000 genomes]
rs7073197	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7081342	0.94[ASN][1000 genomes]
rs7083441	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7910446	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][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	nsv1045692	chr10:53301450-54086823	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv532194	chr10:53746620-54735550	Weak transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
3	nsv895399	chr10:53900872-54219820	Enhancers Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv895400	chr10:54073294-54094359	Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Weak transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:54077600-54080600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr10:54077800-54080600	Enhancers	HSMMtube	muscle
3	chr10:54078200-54080400	Enhancers	Osteobl	bone
4	chr10:54078400-54080400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr10:54078400-54080400	Enhancers	Hela-S3	cervix
6	chr10:54078400-54080400	Enhancers	NH-A	brain
7	chr10:54078400-54080600	Enhancers	HMEC	breast
8	chr10:54078400-54080600	Genic enhancers	HSMM	muscle
9	chr10:54078400-54080600	Enhancers	NHEK	skin
10	chr10:54078400-54094800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr10:54078600-54080600	Enhancers	NHDF-Ad	bronchial
12	chr10:54078600-54082200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr10:54078600-54093200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr10:54078800-54080400	Enhancers	NHLF	lung
15	chr10:54078800-54080600	Enhancers	Muscle Satellite Cultured Cells	--
16	chr10:54078800-54080800	Enhancers	HUVEC	blood vessel
17	chr10:54079600-54080200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr10:54079600-54080200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr10:54079800-54080600	Enhancers	A549	lung
20	chr10:54080000-54080200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr10:54080000-54082400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr10:54080000-54082600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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