Variant report

Variant	rs13118960
Chromosome Location	chr4:95964100-95964101
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	chr4:95961918..95964431-chr4:96005630..96007431,2	MCF-7	breast:

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10017056	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12644723	0.81[EUR][1000 genomes]
rs13103406	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13103870	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13111378	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13127255	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13128282	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13139927	0.80[AMR][1000 genomes]
rs13146146	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13152791	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1434545	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1545328	0.89[ASN][1000 genomes]
rs17344975	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17403454	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17404327	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17411701	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17411860	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1836264	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28601734	0.80[AMR][1000 genomes]
rs34484245	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34745188	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34755714	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34800104	0.80[AMR][1000 genomes]
rs35653658	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35697886	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35888953	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35966830	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3775041	0.91[ASN][1000 genomes]
rs4145994	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4699831	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62316229	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62316236	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62316238	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62316240	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6532526	0.81[EUR][1000 genomes]
rs6532527	0.81[EUR][1000 genomes]
rs6815593	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6815752	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6821072	0.92[ASN][1000 genomes]
rs6829326	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6836821	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6838546	0.80[AMR][1000 genomes]
rs6854585	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6855319	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs723169	0.89[ASN][1000 genomes]
rs723170	0.89[ASN][1000 genomes]
rs7377902	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7669755	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7682651	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7690400	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7694043	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]

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	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
5	nsv879622	chr4:95917980-95984379	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv830011	chr4:95947560-96103934	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:95948200-95966600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr4:95957000-95972400	Weak transcription	Psoas Muscle	Psoas
3	chr4:95959600-95964400	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr4:95959800-95965200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr4:95960800-95965600	Weak transcription	Brain Cingulate Gyrus	brain
6	chr4:95963400-95965600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr4:95963600-95964600	Enhancers	A549	lung
8	chr4:95963800-95968200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr4:95964000-95964800	Weak transcription	Fetal Kidney	kidney

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