Variant report

Variant	rs2190662
Chromosome Location	chr7:78322064-78322065
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	chr7:78312785..78313370-chr7:78321992..78322721,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10227946	1.00[JPT][hapmap]
rs10237271	0.90[JPT][hapmap];0.80[AMR][1000 genomes]
rs10239001	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10255125	0.95[JPT][hapmap]
rs10256096	0.90[JPT][hapmap]
rs10262658	0.86[EUR][1000 genomes]
rs10267607	0.95[JPT][hapmap]
rs10269389	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10274281	0.81[JPT][hapmap]
rs10274288	0.90[JPT][hapmap]
rs10953675	0.90[JPT][hapmap]
rs11768116	0.90[JPT][hapmap]
rs12531323	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12668963	0.96[CEU][hapmap];0.87[EUR][1000 genomes]
rs13234228	0.90[JPT][hapmap]
rs13237827	1.00[JPT][hapmap]
rs13240156	0.90[JPT][hapmap]
rs13242288	0.90[JPT][hapmap]
rs13243808	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs13246026	0.90[JPT][hapmap]
rs1390824	0.90[JPT][hapmap]
rs1496779	0.90[JPT][hapmap]
rs17384271	0.90[JPT][hapmap]
rs2190663	0.93[CEU][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2190664	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2190665	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs35432429	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4730460	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4730461	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs6948326	0.95[JPT][hapmap]
rs7780307	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7780316	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7785088	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7791589	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs9640732	0.90[JPT][hapmap]

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	nsv1022199	chr7:78054639-78469370	Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv538986	chr7:78054639-78469370	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv888509	chr7:78307944-78327299	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
4	nsv1019355	chr7:78319575-78399845	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:78313800-78334200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr7:78318000-78326800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr7:78318400-78327400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr7:78320200-78323200	Enhancers	Brain Germinal Matrix	brain
5	chr7:78321400-78322200	Active TSS	Pancreatic Islets	Pancreatic Islet
6	chr7:78321600-78322200	Enhancers	Fetal Brain Female	brain
7	chr7:78321600-78322600	Enhancers	Brain Anterior Caudate	brain
8	chr7:78321600-78323600	Enhancers	Brain Cingulate Gyrus	brain
9	chr7:78321800-78322200	Weak transcription	Brain Angular Gyrus	brain
10	chr7:78321800-78322200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
11	chr7:78322000-78323000	Weak transcription	Brain Substantia Nigra	brain

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