Variant report

Variant	rs10016092
Chromosome Location	chr4:152162053-152162054
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:152159933..152162263-chr4:152163504..152165739,2	MCF-7	breast:

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10020297	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10434137	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10461255	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10520101	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10520102	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10776522	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11099792	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11099793	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11099796	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11729981	0.80[EUR][1000 genomes]
rs11934792	0.82[EUR][1000 genomes]
rs11945206	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12500223	0.80[EUR][1000 genomes]
rs12644496	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12647306	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13103344	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13111753	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13122609	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13125574	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13149045	0.80[EUR][1000 genomes]
rs1316364	0.80[EUR][1000 genomes]
rs2407222	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2407223	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2407407	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2407408	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2407409	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2407410	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2407412	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2407413	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2407417	0.81[AFR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2407418	0.81[AFR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2407431	0.81[EUR][1000 genomes]
rs2897655	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2897656	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4266274	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4312738	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4467540	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4591577	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4696234	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4696237	0.80[EUR][1000 genomes]
rs4696239	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6535775	0.80[EUR][1000 genomes]
rs6535776	0.80[EUR][1000 genomes]
rs6847669	0.80[EUR][1000 genomes]
rs6847934	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7439970	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7687117	0.80[EUR][1000 genomes]
rs7688786	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7695005	0.80[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	nsv1034948	chr4:151590115-152202687	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
2	nsv537302	chr4:151590115-152202687	ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
3	nsv530159	chr4:151624865-152203910	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
4	nsv880262	chr4:151712054-152519899	Enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
5	nsv881526	chr4:151968295-152489087	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
6	nsv1016220	chr4:151997139-152164126	Flanking Active TSS Strong transcription Enhancers Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
7	nsv537306	chr4:151997139-152164126	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:152129000-152168000	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr4:152129400-152167800	Weak transcription	Right Ventricle	heart
3	chr4:152130200-152187800	Weak transcription	Duodenum Mucosa	Duodenum
4	chr4:152141000-152167400	Weak transcription	HepG2	liver
5	chr4:152144800-152163400	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr4:152148000-152164200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr4:152148200-152163400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr4:152149200-152172000	Weak transcription	Left Ventricle	heart
9	chr4:152149200-152185200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr4:152149200-152197600	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr4:152149600-152173000	Weak transcription	Right Atrium	heart
12	chr4:152156000-152179800	Weak transcription	Fetal Stomach	stomach
13	chr4:152156200-152163400	Weak transcription	Fetal Heart	heart
14	chr4:152157600-152167800	Weak transcription	Fetal Intestine Large	intestine
15	chr4:152158400-152162800	Weak transcription	Fetal Intestine Small	intestine
16	chr4:152158400-152163200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr4:152158400-152163200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr4:152158800-152163600	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr4:152158800-152164000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr4:152158800-152178800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr4:152158800-152181800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr4:152160400-152164200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr4:152160600-152172000	Weak transcription	Brain Hippocampus Middle	brain
24	chr4:152160800-152163200	Weak transcription	Cortex derived primary cultured neurospheres	brain
25	chr4:152161000-152164600	Weak transcription	Brain Anterior Caudate	brain

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