Variant report

Variant	rs56413516
Chromosome Location	chr10:28549536-28549537
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:28548955..28550637-chr10:28589374..28591919,2	MCF-7	breast:

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10508737	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16928617	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16928623	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16928649	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55872459	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56311491	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56389449	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74129034	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917149	chr10:28018919-28688694	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv525448	chr10:28337570-28563732	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv1041555	chr10:28419399-29304934	Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
4	nsv1037863	chr10:28419399-29378871	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
5	nsv540521	chr10:28419399-29378871	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 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	chr10:28519000-28552000	Weak transcription	Fetal Stomach	stomach
2	chr10:28535800-28551600	Weak transcription	Fetal Intestine Small	intestine
3	chr10:28537400-28552600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr10:28537600-28552600	Weak transcription	Primary T cells from cord blood	blood
5	chr10:28537800-28550200	Weak transcription	Primary T helper cells PMA-I stimulated	--
6	chr10:28542400-28552400	Weak transcription	Psoas Muscle	Psoas
7	chr10:28542800-28550200	Weak transcription	Aorta	Aorta
8	chr10:28544000-28552200	Weak transcription	Fetal Heart	heart
9	chr10:28544000-28555600	Weak transcription	Primary hematopoietic stem cells	blood
10	chr10:28544200-28550000	Weak transcription	Rectal Smooth Muscle	rectum
11	chr10:28544200-28552400	Weak transcription	Primary monocytes fromperipheralblood	blood
12	chr10:28544200-28554600	Weak transcription	Monocytes-CD14+_RO01746	blood
13	chr10:28544600-28550200	Weak transcription	Pancreas	Pancrea
14	chr10:28545000-28550000	Weak transcription	Colon Smooth Muscle	Colon
15	chr10:28545000-28550200	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr10:28546200-28550000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr10:28546200-28550200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
18	chr10:28546200-28552400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr10:28548000-28549600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr10:28549000-28550000	Weak transcription	HepG2	liver
21	chr10:28549200-28550800	Enhancers	Stomach Smooth Muscle	stomach
22	chr10:28549400-28549600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr10:28549400-28549600	Enhancers	Right Ventricle	heart
24	chr10:28549400-28550400	Enhancers	Skeletal Muscle Male	skeletal muscle
25	chr10:28549400-28550600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
26	chr10:28549400-28550600	Enhancers	Skeletal Muscle Female	skeletal muscle
27	chr10:28549400-28550800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
28	chr10:28549400-28551400	Enhancers	Primary T helper cells fromperipheralblood	blood
29	chr10:28549400-28551600	Enhancers	Primary B cells from peripheral blood	blood

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