Variant report

Variant	rs6601829
Chromosome Location	chr10:4328374-4328375
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	chr10:4326364..4328633-chr10:4329094..4331140,3	MCF-7	breast:

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs1022768	0.91[CEU][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10795149	0.83[EUR][1000 genomes]
rs10795150	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10904220	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10904222	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11252425	0.83[EUR][1000 genomes]
rs11252432	0.87[EUR][1000 genomes]
rs11252446	0.81[ASN][1000 genomes]
rs11595086	0.82[EUR][1000 genomes]
rs12766787	0.83[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];0.93[GIH][hapmap];0.91[LWK][hapmap];0.96[MEX][hapmap];0.85[MKK][hapmap];0.89[TSI][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1570293	0.85[EUR][1000 genomes]
rs1923395	0.96[CEU][hapmap];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1923396	0.89[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];0.96[MEX][hapmap];0.91[MKK][hapmap];0.92[TSI][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1923397	0.87[CEU][hapmap];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2065092	1.00[JPT][hapmap]
rs2181121	0.83[EUR][1000 genomes]
rs2397707	0.81[AMR][1000 genomes]
rs4881310	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4881311	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4881312	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6601827	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6601828	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6601830	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7069957	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7080263	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7089481	0.87[CEU][hapmap]
rs7097420	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7896160	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7898137	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7912330	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7919377	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs882601	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1799113	chr10:4259123-4332824	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	esv1800792	chr10:4259123-4332824	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	esv1820112	chr10:4259123-4332824	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	esv1822419	chr10:4259123-4332824	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	esv1839293	chr10:4259123-4332824	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	esv1841782	chr10:4259123-4332824	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv894785	chr10:4306421-4372629	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:4323400-4331000	Weak transcription	Lung	lung
2	chr10:4325000-4329800	Weak transcription	Left Ventricle	heart
3	chr10:4326400-4329800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr10:4326600-4328800	Weak transcription	Fetal Muscle Trunk	muscle
5	chr10:4326600-4330000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr10:4327000-4329400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr10:4327000-4331000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr10:4327000-4334600	Weak transcription	Right Atrium	heart
9	chr10:4327200-4329800	Weak transcription	Adipose Nuclei	Adipose
10	chr10:4327600-4333200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr10:4327800-4328800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr10:4327800-4329800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr10:4327800-4334200	Weak transcription	NHDF-Ad	bronchial

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