Variant report

Variant	rs1435463
Chromosome Location	chr11:9710354-9710355
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	chr11:9708443..9711288-chr11:9711524..9713112,2	MCF-7	breast:

Extended variants
information (count: 15 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10743116	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10840285	1.00[CEU][hapmap];0.86[CHB][hapmap];0.98[CHD][hapmap];0.92[GIH][hapmap];0.91[JPT][hapmap];0.95[MEX][hapmap];0.92[TSI][hapmap]
rs10840287	0.87[CEU][hapmap]
rs11042466	0.83[CEU][hapmap]
rs11600183	0.87[CEU][hapmap]
rs2010535	0.86[ASN][1000 genomes]
rs369737	0.81[CHD][hapmap]
rs3763865	0.89[ASN][1000 genomes]
rs4910487	0.87[CEU][hapmap]
rs61878086	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs892853	0.88[ASN][1000 genomes]
rs892855	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933855	chr11:9645441-10130519	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv1053369	chr11:9647837-9876054	Genic enhancers Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv553468	chr11:9667828-9827871	Weak transcription Genic enhancers Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs1435463	FAM160A2	cis	parietal	SCAN
rs1435463	OR2D2	cis	cerebellum	SCAN
rs1435463	EIF3F	cis	cerebellum	SCAN
rs1435463	ADM	cis	cerebellum	SCAN
rs1435463	OR52N4	cis	cerebellum	SCAN
rs1435463	APBB1	cis	parietal	SCAN

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9686600-9711200	Weak transcription	Esophagus	oesophagus
2	chr11:9686800-9710800	Weak transcription	Aorta	Aorta
3	chr11:9686800-9716400	Weak transcription	Ovary	ovary
4	chr11:9687400-9710800	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr11:9701000-9712800	Weak transcription	Small Intestine	intestine
6	chr11:9702800-9711000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr11:9702800-9711200	Weak transcription	Lung	lung
8	chr11:9703200-9710800	Weak transcription	Fetal Muscle Leg	muscle
9	chr11:9703400-9710800	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr11:9703600-9711000	Weak transcription	Fetal Intestine Large	intestine
11	chr11:9703800-9710800	Genic enhancers	Primary B cells from peripheral blood	blood
12	chr11:9703800-9714400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr11:9704200-9723600	Weak transcription	HepG2	liver
14	chr11:9705000-9711200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr11:9705200-9710600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr11:9705600-9711200	Weak transcription	Fetal Muscle Trunk	muscle
17	chr11:9708200-9711200	Weak transcription	Pancreas	Pancrea
18	chr11:9708400-9711800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr11:9708400-9712000	Enhancers	Cortex derived primary cultured neurospheres	brain
20	chr11:9708600-9711000	Weak transcription	Placenta	Placenta
21	chr11:9708800-9710600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr11:9708800-9711600	Enhancers	Fetal Heart	heart
23	chr11:9709000-9710600	Enhancers	Brain Substantia Nigra	brain
24	chr11:9709000-9712200	Enhancers	Adipose Nuclei	Adipose
25	chr11:9709200-9710600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr11:9709200-9710600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr11:9709200-9710600	Enhancers	Brain Anterior Caudate	brain
28	chr11:9709200-9710600	Enhancers	Brain Hippocampus Middle	brain
29	chr11:9709200-9710600	Enhancers	HMEC	breast
30	chr11:9709200-9710600	Enhancers	Osteobl	bone
31	chr11:9709200-9710800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr11:9709200-9710800	Enhancers	Brain Cingulate Gyrus	brain
33	chr11:9709200-9711600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr11:9709200-9711600	Enhancers	Rectal Smooth Muscle	rectum
35	chr11:9709200-9711800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr11:9709200-9711800	Enhancers	Breast Myoepithelial Primary Cells	Breast
37	chr11:9709200-9711800	Enhancers	Muscle Satellite Cultured Cells	--
38	chr11:9709200-9711800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr11:9709400-9710600	Enhancers	Primary hematopoietic stem cells	blood
40	chr11:9709400-9710600	Enhancers	Brain Inferior Temporal Lobe	brain
41	chr11:9709400-9710600	Enhancers	Right Ventricle	heart
42	chr11:9709400-9710800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
43	chr11:9709400-9711200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
44	chr11:9709400-9711600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr11:9709400-9711600	Enhancers	Fetal Lung	lung
46	chr11:9709400-9711600	Enhancers	Fetal Stomach	stomach
47	chr11:9709400-9711600	Enhancers	HSMMtube	muscle
48	chr11:9709400-9711600	Enhancers	NHLF	lung
49	chr11:9709400-9711800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
50	chr11:9709600-9710800	Enhancers	Colon Smooth Muscle	Colon

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