Variant report

Variant	rs561655
Chromosome Location	chr11:85800279-85800280
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	chr11:85798893..85802407-chr11:85803626..85806353,3	K562	blood:
2	chr11:85796338..85798988-chr11:85799126..85803247,4	K562	blood:

Variant related genes	Relation type
ENSG00000238666	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10898438	0.82[GIH][hapmap]
rs10898439	0.84[GIH][hapmap]
rs1237999	0.97[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs2508696	0.80[CEU][hapmap]
rs3851178	0.82[GIH][hapmap]
rs472486	0.92[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs480781	0.94[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs493254	0.80[CEU][hapmap];0.83[CHB][hapmap]
rs497816	0.83[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs526904	0.84[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs535590	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs536841	0.84[CEU][hapmap];0.84[CHD][hapmap];0.85[GIH][hapmap];0.95[JPT][hapmap];0.92[MEX][hapmap];0.92[AMR][1000 genomes]
rs541458	0.84[CEU][hapmap];0.87[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];0.87[MEX][hapmap];0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs542126	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs545592	0.84[CHB][hapmap]
rs561646	0.80[CEU][hapmap]
rs565719	0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs566975	0.90[AFR][1000 genomes]
rs604767	0.91[JPT][hapmap];0.83[ASN][1000 genomes]
rs609903	0.80[CEU][hapmap];0.86[GIH][hapmap]
rs631639	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs638509	0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs652165	0.83[ASN][1000 genomes]
rs659023	0.83[CHB][hapmap];0.93[GIH][hapmap];0.84[TSI][hapmap]
rs676733	0.84[GIH][hapmap]
rs677909	0.80[CEU][hapmap];0.87[GIH][hapmap]
rs682928	0.80[CEU][hapmap];0.85[CHB][hapmap]
rs7113976	0.91[CHB][hapmap];0.89[CHD][hapmap];0.83[JPT][hapmap]
rs7941541	0.88[TSI][hapmap]
rs867611	0.84[CHB][hapmap];0.83[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1050948	chr11:85756325-85968665	Active TSS Genic enhancers Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
2	nsv541117	chr11:85756325-85968665	Enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases

Variant related diseases (count:1)

Disease	PMID	Source
Alzheimer's disease (late onset)	21460841	GWAS catalog

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:85791600-85801200	Weak transcription	Pancreas	Pancrea
2	chr11:85796200-85801200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr11:85798400-85803800	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr11:85798800-85802600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr11:85798800-85802600	Weak transcription	HSMMtube	muscle
6	chr11:85799000-85800800	Weak transcription	HSMM	muscle
7	chr11:85799600-85800400	Enhancers	Liver	Liver
8	chr11:85799600-85802800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr11:85800000-85800400	Enhancers	HepG2	liver
10	chr11:85800000-85801000	Enhancers	Adipose Nuclei	Adipose
11	chr11:85800000-85801200	Enhancers	Brain Anterior Caudate	brain
12	chr11:85800000-85801800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr11:85800000-85802000	Enhancers	Stomach Smooth Muscle	stomach
14	chr11:85800200-85800400	Enhancers	NH-A	brain
15	chr11:85800200-85801400	Enhancers	Brain Inferior Temporal Lobe	brain
16	chr11:85800200-85801600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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