Variant report

Variant	rs10128675
Chromosome Location	chr11:86608002-86608003
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:86605636..86608133-chr11:86612933..86614898,2	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10898547	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10898550	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10898551	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11234842	0.86[ASN][1000 genomes]
rs11234861	0.82[ASN][1000 genomes]
rs11234866	0.96[ASN][1000 genomes]
rs11234867	0.96[ASN][1000 genomes]
rs11823744	0.80[ASN][1000 genomes]
rs17149479	0.86[ASN][1000 genomes]
rs17149491	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17149495	0.96[ASN][1000 genomes]
rs17149499	0.96[ASN][1000 genomes]
rs56315708	0.96[ASN][1000 genomes]
rs57622507	0.82[ASN][1000 genomes]
rs59459696	0.86[ASN][1000 genomes]
rs67465513	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7107970	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7107991	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7118936	0.82[ASN][1000 genomes]
rs7119845	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7128832	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7130099	0.82[ASN][1000 genomes]
rs7131566	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044081	chr11:86133641-86868560	Bivalent/Poised TSS Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv541118	chr11:86133641-86868560	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	esv2756074	chr11:86456552-86729552	Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv1037042	chr11:86586876-86978492	Enhancers Flanking Active TSS Strong transcription Active TSS Weak transcription ZNF genes & repeats Genic enhancers Bivalent/Poised 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	16 gene(s)	inside rSNPs	diseases
5	nsv541119	chr11:86586876-86978492	Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10128675	NAALAD2	cis	cerebellum	SCAN
rs10128675	PRCP	cis	parietal	SCAN

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:86578200-86627400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr11:86597200-86617400	Weak transcription	Aorta	Aorta
3	chr11:86597600-86620800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr11:86597600-86627400	Weak transcription	Ovary	ovary
5	chr11:86599600-86627600	Weak transcription	Fetal Muscle Trunk	muscle
6	chr11:86600600-86627600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr11:86602400-86627600	Weak transcription	Left Ventricle	heart
8	chr11:86606800-86608400	Enhancers	Muscle Satellite Cultured Cells	--
9	chr11:86606800-86623000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr11:86607200-86608200	Enhancers	NHDF-Ad	bronchial
11	chr11:86607200-86608400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr11:86607200-86608800	Enhancers	Fetal Stomach	stomach
13	chr11:86607400-86608200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr11:86607400-86608200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr11:86607400-86608200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr11:86607400-86608200	Enhancers	HSMM	muscle
17	chr11:86607400-86608200	Enhancers	HUVEC	blood vessel
18	chr11:86607400-86608800	Enhancers	Fetal Muscle Leg	muscle
19	chr11:86607600-86608200	Enhancers	Adipose Nuclei	Adipose
20	chr11:86607600-86608200	Enhancers	Osteobl	bone
21	chr11:86607600-86608400	Enhancers	Fetal Lung	lung
22	chr11:86607600-86608400	Enhancers	NHLF	lung
23	chr11:86607600-86608600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr11:86607600-86608600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr11:86607600-86614400	Weak transcription	HSMMtube	muscle
26	chr11:86607800-86608400	Enhancers	Duodenum Smooth Muscle	Duodenum

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