Variant report

Variant	rs7905728
Chromosome Location	chr10:52754020-52754021
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:52753176..52755262-chr10:52757762..52759407,2	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10128514	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1015288	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10761651	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10761657	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10822020	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10822032	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10822040	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10822045	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10822095	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10822101	0.85[EUR][1000 genomes]
rs10995206	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10995339	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2660215	0.81[ASN][1000 genomes]
rs2879549	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35756803	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4041333	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6479833	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6479834	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6479835	1.00[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6479836	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6479839	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7070037	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7070266	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7076050	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7091997	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7093621	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7099130	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7100141	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7900993	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7916612	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831872	chr10:52663328-52818537	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv831873	chr10:52710610-52899540	Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:52748600-52754400	Active TSS	Aorta	Aorta
2	chr10:52750000-52754600	Active TSS	Rectal Mucosa Donor 29	rectum
3	chr10:52750600-52754200	Active TSS	Fetal Lung	lung
4	chr10:52751600-52754200	Bivalent/Poised TSS	ES-WA7 Cell Line	embryonic stem cell
5	chr10:52753200-52754200	Active TSS	NHLF	lung
6	chr10:52753600-52754200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr10:52753600-52754400	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr10:52753600-52754400	Enhancers	Fetal Intestine Small	intestine
9	chr10:52753600-52754400	Active TSS	Pancreas	Pancrea
10	chr10:52753600-52757800	Weak transcription	Psoas Muscle	Psoas
11	chr10:52753800-52754400	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr10:52753800-52754400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
13	chr10:52753800-52754400	Enhancers	Fetal Muscle Trunk	muscle
14	chr10:52753800-52754400	Bivalent Enhancer	Fetal Muscle Leg	muscle
15	chr10:52753800-52754600	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
16	chr10:52753800-52754600	Enhancers	Duodenum Smooth Muscle	Duodenum
17	chr10:52753800-52754600	Active TSS	Rectal Mucosa Donor 31	rectum
18	chr10:52753800-52755400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr10:52753800-52757000	Weak transcription	Fetal Heart	heart
20	chr10:52753800-52757800	Weak transcription	Right Atrium	heart
21	chr10:52753800-52765400	Weak transcription	Left Ventricle	heart
22	chr10:52754000-52754600	Enhancers	Fetal Stomach	stomach
23	chr10:52754000-52754600	Enhancers	NHDF-Ad	bronchial
24	chr10:52754000-52755000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr10:52754000-52756800	Enhancers	Skeletal Muscle Male	skeletal muscle
26	chr10:52754000-52756800	Enhancers	Skeletal Muscle Female	skeletal muscle
27	chr10:52754000-52758800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr10:52754000-52759600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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