Variant report

Variant	rs1939670
Chromosome Location	chr11:120679559-120679560
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	chr11:120679289..120681891-chr11:120696979..120699784,2	MCF-7	breast:

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs12291852	0.85[CEU][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1320649	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1939671	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs1939672	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs2155260	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2186699	1.00[CEU][hapmap];0.96[YRI][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3016414	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3020104	0.92[EUR][1000 genomes]
rs3020105	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3020184	0.86[EUR][1000 genomes]
rs3133525	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs948024	0.92[EUR][1000 genomes]
rs948025	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs948026	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs948034	1.00[CEU][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[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	nsv1053607	chr11:120540795-120802006	Enhancers Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1038264	chr11:120582595-120799335	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv541181	chr11:120582595-120799335	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv832286	chr11:120585843-120745846	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:120671400-120687400	Weak transcription	Brain Substantia Nigra	brain
2	chr11:120673600-120687800	Weak transcription	Brain Cingulate Gyrus	brain
3	chr11:120673600-120687800	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr11:120674000-120696000	Weak transcription	Fetal Lung	lung
5	chr11:120676000-120680200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
6	chr11:120676400-120680200	Enhancers	Placenta	Placenta
7	chr11:120676600-120680000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr11:120677600-120680000	Enhancers	HUES6 Cell Line	embryonic stem cell
9	chr11:120677800-120679600	Enhancers	ES-I3 Cell Line	embryonic stem cell
10	chr11:120678000-120679600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr11:120678000-120679600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr11:120678000-120679800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr11:120678600-120679600	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr11:120678600-120679600	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr11:120678600-120680200	Enhancers	Liver	Liver
16	chr11:120678800-120680200	Enhancers	A549	lung
17	chr11:120678800-120681200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr11:120678800-120683600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr11:120678800-120688000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr11:120679200-120679600	Enhancers	Adipose Nuclei	Adipose
21	chr11:120679200-120680200	Flanking Active TSS	HepG2	liver

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