Variant report

Variant	rs10026162
Chromosome Location	chr4:53718375-53718376
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:53716501..53719430-chr4:53720319..53723628,3	K562	blood:
2	chr4:53717769..53720549-chr4:53725622..53727129,2	K562	blood:
3	chr4:53715750..53717744-chr4:53718273..53721166,2	MCF-7	breast:
4	chr4:53712700..53715179-chr4:53718213..53720143,2	MCF-7	breast:

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10003908	0.86[ASN][1000 genomes]
rs10016904	0.94[ASN][1000 genomes]
rs10023440	0.91[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10032190	0.85[ASN][1000 genomes]
rs11940896	0.91[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11941841	0.94[ASW][hapmap];0.91[CEU][hapmap];0.95[CHB][hapmap];0.90[CHD][hapmap];0.97[GIH][hapmap];0.89[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11947787	1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2017237	0.86[MKK][hapmap]
rs4864676	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4864678	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4864680	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4864685	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs62336790	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6554056	0.94[ASW][hapmap];0.91[CEU][hapmap];0.95[CHB][hapmap];0.97[GIH][hapmap];0.89[JPT][hapmap];0.90[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6838718	0.87[GIH][hapmap]
rs6844680	0.91[CEU][hapmap];0.95[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs730246	0.86[ASN][1000 genomes]
rs730247	0.86[ASN][1000 genomes]
rs731073	0.85[ASN][1000 genomes]
rs7663943	0.91[CEU][hapmap];0.90[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7692692	0.91[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[YRI][hapmap];0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8287	0.84[ASW][hapmap];0.95[CHB][hapmap];0.90[CHD][hapmap];0.89[JPT][hapmap];0.80[LWK][hapmap];0.86[MEX][hapmap];0.80[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs881743	0.91[CEU][hapmap];0.81[CHB][hapmap];0.88[JPT][hapmap];0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs936690	0.95[CHB][hapmap];0.93[CHD][hapmap];0.83[JPT][hapmap];0.93[MEX][hapmap];0.86[ASN][1000 genomes]
rs962416	1.00[CHB][hapmap];0.97[CHD][hapmap];0.94[JPT][hapmap];0.93[MEX][hapmap];0.83[TSI][hapmap];0.94[ASN][1000 genomes]
rs9995861	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]

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	nsv594201	chr4:52798624-53732445	Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
2	nsv1004889	chr4:53436500-54106281	Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv537094	chr4:53436500-54106281	Bivalent/Poised TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
4	nsv1004086	chr4:53698581-53773183	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:53708400-53719000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr4:53709200-53718600	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr4:53709200-53718800	Weak transcription	Colon Smooth Muscle	Colon
4	chr4:53709200-53718800	Weak transcription	Stomach Smooth Muscle	stomach
5	chr4:53709400-53718400	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr4:53709400-53721000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr4:53709600-53718800	Weak transcription	Right Ventricle	heart
8	chr4:53710000-53718600	Weak transcription	Fetal Muscle Leg	muscle
9	chr4:53710400-53718600	Weak transcription	Placenta	Placenta
10	chr4:53710800-53718400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr4:53713200-53718600	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr4:53713400-53719000	Enhancers	Stomach Mucosa	stomach
13	chr4:53714600-53718800	Weak transcription	Fetal Lung	lung
14	chr4:53714600-53719000	Weak transcription	Fetal Kidney	kidney
15	chr4:53715000-53720000	Weak transcription	Left Ventricle	heart
16	chr4:53715200-53718600	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr4:53715200-53718800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr4:53715200-53718800	Weak transcription	Esophagus	oesophagus
19	chr4:53715200-53719000	Weak transcription	NHEK	skin
20	chr4:53715200-53719200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr4:53715200-53721000	Weak transcription	HUES64 Cell Line	embryonic stem cell
22	chr4:53716000-53722200	Enhancers	Fetal Heart	heart
23	chr4:53716600-53719200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr4:53716600-53721600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr4:53717200-53718600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr4:53717200-53718600	Weak transcription	HSMMtube	muscle
27	chr4:53717200-53718800	Weak transcription	Pancreas	Pancrea
28	chr4:53717200-53719000	Weak transcription	Duodenum Mucosa	Duodenum
29	chr4:53717600-53720800	Enhancers	NHDF-Ad	bronchial
30	chr4:53717800-53718600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr4:53717800-53718800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr4:53717800-53719800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr4:53718000-53718600	Enhancers	Lung	lung
34	chr4:53718000-53719000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr4:53718000-53720600	Enhancers	NHLF	lung
36	chr4:53718000-53723600	Enhancers	Breast Myoepithelial Primary Cells	Breast
37	chr4:53718200-53718400	Enhancers	iPS-20b Cell Line	embryonic stem cell
38	chr4:53718200-53718800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr4:53718200-53719000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr4:53718200-53719000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr4:53718200-53719200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
42	chr4:53718200-53719200	Enhancers	Right Atrium	heart

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