Variant report

Variant	rs17566876
Chromosome Location	chr18:7956629-7956630
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	chr18:7953033..7955520-chr18:7955662..7957889,2	MCF-7	breast:

Extended variants
information (count: 35 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs16952755	0.91[CEU][hapmap];0.80[CHB][hapmap];0.82[JPT][hapmap]
rs16952764	1.00[CEU][hapmap];0.80[CHB][hapmap];0.82[JPT][hapmap]
rs16952768	1.00[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.85[GIH][hapmap];0.82[JPT][hapmap];0.85[MEX][hapmap]
rs17566436	0.90[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17566499	0.90[CEU][hapmap];0.90[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28704912	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4633833	1.00[CEU][hapmap];0.80[CHB][hapmap];0.82[JPT][hapmap]
rs60434124	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs60647787	0.94[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62090937	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62090939	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62090940	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs718274	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs7228385	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7229479	1.00[CEU][hapmap];0.80[CHB][hapmap];0.95[CHD][hapmap];0.85[GIH][hapmap];0.82[JPT][hapmap];0.85[MEX][hapmap]
rs7232132	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7232467	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7234961	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7237410	0.91[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.85[GIH][hapmap];0.82[JPT][hapmap];0.85[MEX][hapmap]
rs7238517	1.00[CEU][hapmap]
rs7240783	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7241732	1.00[CEU][hapmap];0.90[CHB][hapmap];0.82[JPT][hapmap]
rs7244725	0.91[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.85[GIH][hapmap];0.82[JPT][hapmap]
rs8084791	1.00[CEU][hapmap];0.80[CHB][hapmap];0.95[CHD][hapmap];0.85[GIH][hapmap];0.82[JPT][hapmap];0.85[MEX][hapmap]
rs8087998	0.90[CHB][hapmap]
rs8089170	1.00[CEU][hapmap];0.80[CHB][hapmap];0.95[CHD][hapmap];0.85[GIH][hapmap];0.82[JPT][hapmap];0.85[MEX][hapmap]
rs8096083	0.82[CHB][hapmap]
rs8096085	1.00[CEU][hapmap];0.80[CHB][hapmap];0.82[JPT][hapmap]
rs9956729	0.80[CHB][hapmap]
rs9964012	0.85[EUR][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	nsv534374	chr18:7438812-8412546	Enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1062911	chr18:7561991-8088274	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv543637	chr18:7561991-8088274	Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1064345	chr18:7562051-8088274	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv543638	chr18:7562051-8088274	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:7932200-7961000	Weak transcription	HepG2	liver
2	chr18:7941800-7966400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr18:7946200-7958200	Weak transcription	Aorta	Aorta
4	chr18:7947200-7958200	Weak transcription	Colon Smooth Muscle	Colon
5	chr18:7947200-7981400	Weak transcription	Fetal Stomach	stomach
6	chr18:7947400-7958200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
7	chr18:7947400-7958400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr18:7947400-7959200	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr18:7947400-7963400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr18:7947400-7963600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr18:7947400-7965600	Weak transcription	Thymus	Thymus
12	chr18:7947600-7958200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr18:7947800-7957000	Weak transcription	Pancreatic Islets	Pancreatic Islet
14	chr18:7947800-7957400	Weak transcription	Spleen	Spleen
15	chr18:7947800-7958400	Weak transcription	Brain Anterior Caudate	brain
16	chr18:7947800-7958400	Weak transcription	Gastric	stomach
17	chr18:7947800-7958600	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr18:7947800-7967600	Weak transcription	Primary T cells from cord blood	blood
19	chr18:7948000-7957000	Weak transcription	Brain Cingulate Gyrus	brain
20	chr18:7948000-7959600	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr18:7948000-7965800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr18:7948000-7967200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr18:7948000-7975000	Weak transcription	Pancreas	Pancrea
24	chr18:7951000-7958600	Weak transcription	Stomach Smooth Muscle	stomach
25	chr18:7951200-7958000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr18:7951200-7958200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr18:7951200-7963400	Weak transcription	Adipose Nuclei	Adipose
28	chr18:7951600-7958400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr18:7951600-7965800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr18:7953600-7958800	Weak transcription	Fetal Heart	heart
31	chr18:7953800-7958400	Enhancers	Hela-S3	cervix
32	chr18:7954200-7957400	Weak transcription	Primary T helper cells PMA-I stimulated	--
33	chr18:7954200-7957400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr18:7954200-7957400	Weak transcription	GM12878-XiMat	blood
35	chr18:7954400-7956800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
36	chr18:7954400-7958200	Weak transcription	NHDF-Ad	bronchial
37	chr18:7954400-7966000	Weak transcription	Fetal Kidney	kidney
38	chr18:7955000-7957800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr18:7955000-7958200	Weak transcription	Muscle Satellite Cultured Cells	--
40	chr18:7955000-7958200	Weak transcription	Osteobl	bone
41	chr18:7955000-7958400	Weak transcription	NH-A	brain
42	chr18:7955200-7958200	Weak transcription	HUVEC	blood vessel
43	chr18:7955200-7958200	Weak transcription	NHLF	lung
44	chr18:7955400-7958200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr18:7955400-7958400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr18:7955400-7965200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr18:7955600-7956800	Weak transcription	Right Ventricle	heart
48	chr18:7955600-7957000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
49	chr18:7955600-7957400	Weak transcription	Left Ventricle	heart
50	chr18:7955600-7957400	Weak transcription	Right Atrium	heart

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