Variant report

Variant	rs56079905
Chromosome Location	chr18:7617745-7617746
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs11876323	0.85[ASN][1000 genomes]
rs11876394	0.85[ASN][1000 genomes]
rs13313691	0.85[ASN][1000 genomes]
rs13381320	0.89[ASN][1000 genomes]
rs16952317	0.81[ASN][1000 genomes]
rs28375830	1.00[ASN][1000 genomes]
rs28507304	1.00[ASN][1000 genomes]
rs55669819	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs55793264	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55983357	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs56165536	1.00[ASN][1000 genomes]
rs57109716	0.85[ASN][1000 genomes]
rs58291169	0.89[ASN][1000 genomes]
rs58361187	0.85[ASN][1000 genomes]
rs73387558	0.89[ASN][1000 genomes]
rs73387591	0.85[ASN][1000 genomes]
rs9946337	0.89[ASN][1000 genomes]
rs9954075	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2656232	chr18:7111033-7658679	Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1064597	chr18:7169490-7762738	Active TSS Enhancers Bivalent Enhancer Genic enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv543636	chr18:7169490-7762738	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised 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	8 gene(s)	inside rSNPs	diseases
4	nsv1063350	chr18:7215275-7659999	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	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
6	nsv458016	chr18:7488133-7934001	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv576399	chr18:7488133-7934001	Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
8	esv2762810	chr18:7492090-7924728	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
9	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
10	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
11	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
12	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:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:7608800-7618600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
2	chr18:7613200-7617800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr18:7614000-7620400	Enhancers	Fetal Lung	lung
4	chr18:7614600-7619600	Enhancers	Skeletal Muscle Male	skeletal muscle
5	chr18:7615200-7617800	Enhancers	Fetal Heart	heart
6	chr18:7615200-7619400	Enhancers	Skeletal Muscle Female	skeletal muscle
7	chr18:7615400-7619400	Enhancers	Adipose Nuclei	Adipose
8	chr18:7616000-7618200	Enhancers	HepG2	liver
9	chr18:7616400-7617800	Enhancers	Rectal Smooth Muscle	rectum
10	chr18:7616600-7618200	Enhancers	NHEK	skin
11	chr18:7616600-7620400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr18:7616800-7617800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr18:7617000-7617800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
14	chr18:7617000-7617800	Weak transcription	Fetal Muscle Leg	muscle
15	chr18:7617000-7617800	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr18:7617000-7617800	Weak transcription	NHLF	lung
17	chr18:7617000-7618200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr18:7617000-7618800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr18:7617000-7619600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr18:7617000-7619600	Weak transcription	Esophagus	oesophagus
21	chr18:7617000-7619600	Weak transcription	Fetal Stomach	stomach
22	chr18:7617000-7619600	Weak transcription	Lung	lung
23	chr18:7617000-7619800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr18:7617000-7620400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr18:7617000-7622600	Weak transcription	Pancreas	Pancrea
26	chr18:7617000-7624600	Weak transcription	Fetal Muscle Trunk	muscle
27	chr18:7617000-7626200	Weak transcription	Ovary	ovary
28	chr18:7617200-7617800	Enhancers	Fetal Kidney	kidney
29	chr18:7617200-7618800	Enhancers	Cortex derived primary cultured neurospheres	brain
30	chr18:7617200-7620000	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr18:7617200-7620400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr18:7617400-7617800	Weak transcription	Brain Cingulate Gyrus	brain
33	chr18:7617400-7617800	Enhancers	A549	lung
34	chr18:7617400-7618000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr18:7617400-7618400	Active TSS	NHDF-Ad	bronchial
36	chr18:7617400-7618600	Weak transcription	Brain Substantia Nigra	brain
37	chr18:7617400-7618800	Flanking Active TSS	Osteobl	bone
38	chr18:7617400-7619200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr18:7617600-7617800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr18:7617600-7617800	Flanking Active TSS	Colon Smooth Muscle	Colon
41	chr18:7617600-7617800	Flanking Active TSS	Stomach Smooth Muscle	stomach
42	chr18:7617600-7617800	Active TSS	HMEC	breast
43	chr18:7617600-7618000	Flanking Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr18:7617600-7618000	Active TSS	Duodenum Smooth Muscle	Duodenum
45	chr18:7617600-7618000	Flanking Active TSS	Right Atrium	heart
46	chr18:7617600-7618000	Flanking Active TSS	Right Ventricle	heart
47	chr18:7617600-7618200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
48	chr18:7617600-7618200	Flanking Active TSS	Liver	Liver
49	chr18:7617600-7618400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
50	chr18:7617600-7618400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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