Variant report

Variant	rs12779617
Chromosome Location	chr10:49739147-49739148
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	chr10:49736745..49739219-chr10:49746347..49749288,2	MCF-7	breast:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10857587	0.88[ASN][1000 genomes]
rs10857588	0.88[ASN][1000 genomes]
rs10857589	0.88[ASN][1000 genomes]
rs11101354	0.88[ASN][1000 genomes]
rs11101355	0.88[ASN][1000 genomes]
rs11101357	0.88[ASN][1000 genomes]
rs11596336	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12777174	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12777190	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1348633	0.81[ASN][1000 genomes]
rs1814469	0.81[ASN][1000 genomes]
rs1816888	0.88[ASN][1000 genomes]
rs1838573	0.83[ASN][1000 genomes]
rs1838574	0.81[ASN][1000 genomes]
rs1900021	0.83[ASN][1000 genomes]
rs1900022	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34279198	0.88[ASN][1000 genomes]
rs34552122	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34774310	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3910907	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4101278	0.83[ASN][1000 genomes]
rs4838418	0.84[ASN][1000 genomes]
rs56080723	0.83[ASN][1000 genomes]
rs56248718	0.83[ASN][1000 genomes]
rs7072237	0.84[ASN][1000 genomes]
rs7910353	0.83[ASN][1000 genomes]
rs7911247	0.88[ASN][1000 genomes]
rs7915127	0.84[ASN][1000 genomes]
rs7915233	0.88[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	nsv895371	chr10:49492075-50232180	Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	35 gene(s)	inside rSNPs	diseases
2	nsv895372	chr10:49576878-49933488	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:49732200-49750800	Weak transcription	Gastric	stomach
2	chr10:49732800-49742000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr10:49734400-49743400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr10:49734400-49762400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr10:49734800-49741800	Weak transcription	Fetal Muscle Trunk	muscle
6	chr10:49734800-49743200	Weak transcription	HMEC	breast
7	chr10:49735400-49742000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr10:49735400-49742000	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr10:49735400-49749400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr10:49735400-49756800	Weak transcription	HSMMtube	muscle
11	chr10:49735600-49739400	Weak transcription	NH-A	brain
12	chr10:49735600-49739600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr10:49735600-49743200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr10:49735600-49755600	Weak transcription	Brain Angular Gyrus	brain
15	chr10:49735800-49739200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr10:49736000-49741000	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr10:49736000-49742000	Weak transcription	Brain Cingulate Gyrus	brain
18	chr10:49736200-49749400	Weak transcription	HUVEC	blood vessel
19	chr10:49736400-49739400	Weak transcription	NHLF	lung
20	chr10:49736800-49742200	Weak transcription	Brain Substantia Nigra	brain
21	chr10:49737200-49739200	Weak transcription	NHDF-Ad	bronchial
22	chr10:49737200-49741600	Weak transcription	Osteobl	bone
23	chr10:49737800-49739400	Weak transcription	HSMM	muscle
24	chr10:49737800-49741600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr10:49738200-49739200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr10:49738600-49740200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin

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