Variant report

Variant	rs10261415
Chromosome Location	chr7:83760881-83760882
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:83754771..83757226-chr7:83760360..83762151,2	MCF-7	breast:

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10259508	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10263314	1.00[CEU][hapmap];0.90[CHB][hapmap];0.88[EUR][1000 genomes]
rs10268747	0.85[JPT][hapmap]
rs10279093	0.86[EUR][1000 genomes]
rs10808306	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12707615	0.86[EUR][1000 genomes]
rs12707616	0.86[EUR][1000 genomes]
rs12707617	0.84[CEU][hapmap];0.81[CHB][hapmap];0.87[EUR][1000 genomes]
rs12707619	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1468344	0.81[CHB][hapmap];0.86[EUR][1000 genomes]
rs1468345	1.00[CEU][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1468346	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2040872	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2067693	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2158566	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2372033	0.81[CHB][hapmap];0.91[CHD][hapmap];0.89[TSI][hapmap];0.86[EUR][1000 genomes]
rs2527037	0.84[EUR][1000 genomes]
rs2527038	0.85[JPT][hapmap]
rs2691698	0.84[EUR][1000 genomes]
rs2691700	0.84[EUR][1000 genomes]
rs3801655	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4141151	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs447	1.00[CEU][hapmap];0.90[GIH][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs464	0.90[CHB][hapmap];0.83[GIH][hapmap];0.86[MEX][hapmap]
rs4732543	0.81[CHB][hapmap];0.86[EUR][1000 genomes]
rs4732545	0.81[CHB][hapmap];0.86[EUR][1000 genomes]
rs6467987	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6467988	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6651129	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6963122	0.85[JPT][hapmap]
rs6964546	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6974494	0.81[CHB][hapmap];0.91[CHD][hapmap];0.89[TSI][hapmap];0.86[EUR][1000 genomes]
rs6977099	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6977306	0.84[EUR][1000 genomes]
rs6977516	0.90[CHB][hapmap]
rs6978184	1.00[CEU][hapmap];0.90[GIH][hapmap];1.00[MEX][hapmap];0.88[EUR][1000 genomes]
rs7781152	0.85[JPT][hapmap]
rs7781923	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7783472	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7785708	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7789995	0.85[JPT][hapmap]
rs7793598	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];0.93[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7804563	0.83[EUR][1000 genomes]
rs7808864	0.84[CEU][hapmap];1.00[GIH][hapmap];0.88[MEX][hapmap];0.89[TSI][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs929334	0.81[CHB][hapmap];0.91[CHD][hapmap];0.89[TSI][hapmap];0.86[EUR][1000 genomes]
rs929335	0.86[EUR][1000 genomes]
rs933341	0.81[CHB][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	nsv529344	chr7:83714286-84592857	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	nsv888629	chr7:83722691-83896025	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv1017884	chr7:83724138-83972995	Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv538995	chr7:83724138-83972995	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 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	chr7:83734400-83762800	Weak transcription	Fetal Muscle Leg	muscle
2	chr7:83745000-83769400	Weak transcription	Fetal Stomach	stomach
3	chr7:83752600-83769600	Weak transcription	A549	lung
4	chr7:83753800-83763400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr7:83753800-83763400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr7:83753800-83763400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr7:83753800-83766800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr7:83753800-83766800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr7:83753800-83768000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr7:83753800-83768200	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr7:83753800-83769600	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr7:83753800-83770800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr7:83754000-83763400	Weak transcription	Stomach Smooth Muscle	stomach
14	chr7:83754000-83767400	Weak transcription	NHLF	lung
15	chr7:83754000-83767800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr7:83754000-83772200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr7:83754000-83774200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr7:83754800-83763400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr7:83755000-83763400	Weak transcription	HUES6 Cell Line	embryonic stem cell
20	chr7:83755000-83768800	Weak transcription	Colon Smooth Muscle	Colon
21	chr7:83756800-83763000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr7:83756800-83764000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr7:83757200-83762400	Weak transcription	HUES64 Cell Line	embryonic stem cell
24	chr7:83758600-83765400	Weak transcription	HUES48 Cell Line	embryonic stem cell
25	chr7:83759000-83761200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr7:83759600-83762200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr7:83759800-83761000	Enhancers	Rectal Smooth Muscle	rectum
28	chr7:83760000-83763400	Weak transcription	NHDF-Ad	bronchial
29	chr7:83760600-83761000	Enhancers	Fetal Lung	lung

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