Variant report

Variant	rs13108056
Chromosome Location	chr4:95849514-95849515
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	chr4:95848217..95850324-chr4:95853544..95856534,2	MCF-7	breast:

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10021303	1.00[CEU][hapmap];0.80[GIH][hapmap];0.94[MEX][hapmap];0.95[TSI][hapmap];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10516956	0.94[JPT][hapmap]
rs11934132	0.94[JPT][hapmap]
rs11940214	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11943406	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12505823	0.88[JPT][hapmap]
rs12508693	0.87[JPT][hapmap]
rs13106009	0.94[JPT][hapmap]
rs13118309	0.94[JPT][hapmap]
rs13142031	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1373649	0.94[JPT][hapmap]
rs1373651	0.94[JPT][hapmap]
rs1444927	0.94[JPT][hapmap]
rs1444928	0.94[JPT][hapmap]
rs1444929	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1444930	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.88[JPT][hapmap];0.94[MEX][hapmap];0.97[TSI][hapmap];0.86[YRI][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28433320	0.86[ASN][1000 genomes]
rs28521217	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3775017	0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs3775021	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3775022	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3775024	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3775025	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3775026	0.86[ASN][1000 genomes]
rs3796413	0.94[JPT][hapmap]
rs3796417	0.88[JPT][hapmap]
rs3796419	0.94[JPT][hapmap]
rs3796423	0.94[JPT][hapmap]
rs3796424	0.94[JPT][hapmap]
rs41420348	0.86[ASN][1000 genomes]
rs6815064	0.88[JPT][hapmap]
rs6849425	0.89[CHD][hapmap];0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs7655484	0.94[JPT][hapmap]
rs7658478	0.94[JPT][hapmap]
rs7661049	0.94[JPT][hapmap]
rs7671870	0.94[JPT][hapmap]
rs7673752	0.94[JPT][hapmap]
rs930581	0.94[JPT][hapmap]
rs9307150	0.94[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932216	chr4:95501261-96109807	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv1003860	chr4:95507683-96120619	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv869528	chr4:95537649-96368018	Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv1005816	chr4:95573444-95902704	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
5	nsv492312	chr4:95823124-96128327	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
6	nsv980460	chr4:95846294-95850077	Flanking Active TSS Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:95831000-95855000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr4:95847600-95849600	Weak transcription	NHEK	skin
3	chr4:95848200-95849600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr4:95848200-95849600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr4:95848200-95849600	Enhancers	Ovary	ovary
6	chr4:95848200-95849800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr4:95848400-95849600	Enhancers	Breast Myoepithelial Primary Cells	Breast
8	chr4:95848400-95849800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr4:95848400-95849800	Enhancers	HUES64 Cell Line	embryonic stem cell
10	chr4:95848600-95850200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr4:95848800-95849600	Enhancers	ES-I3 Cell Line	embryonic stem cell
12	chr4:95848800-95849600	Enhancers	HUES48 Cell Line	embryonic stem cell
13	chr4:95848800-95849600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr4:95848800-95849600	Enhancers	Brain Germinal Matrix	brain
15	chr4:95848800-95849800	Enhancers	HUES6 Cell Line	embryonic stem cell
16	chr4:95849000-95850400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr4:95849000-95850600	Enhancers	A549	lung
18	chr4:95849200-95850200	Weak transcription	Fetal Kidney	kidney
19	chr4:95849200-95850800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr4:95849200-95852400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr4:95849200-95852800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr4:95849200-95854600	Weak transcription	NH-A	brain
23	chr4:95849200-95855200	Weak transcription	Placenta Amnion	Placenta Amnion
24	chr4:95849200-95856400	Weak transcription	Aorta	Aorta
25	chr4:95849200-95861600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr4:95849400-95849800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
27	chr4:95849400-95850000	Enhancers	iPS-15b Cell Line	embryonic stem cell
28	chr4:95849400-95850400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr4:95849400-95850600	Weak transcription	Stomach Smooth Muscle	stomach

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