Variant report

Variant	rs10014018
Chromosome Location	chr4:56763170-56763171
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs1133506	0.88[ASN][1000 genomes]
rs13143281	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17086157	0.88[ASN][1000 genomes]
rs17797565	1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[ASN][1000 genomes]
rs1947128	0.88[YRI][hapmap]
rs1992813	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs2412692	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4352536	1.00[ASN][1000 genomes]
rs56944181	0.88[ASN][1000 genomes]
rs6554325	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs66929918	0.88[ASN][1000 genomes]
rs66984899	0.88[ASN][1000 genomes]
rs67351752	0.88[ASN][1000 genomes]
rs6824915	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73155525	0.88[ASN][1000 genomes]
rs73155539	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2755990	chr4:56317136-57143037	Strong transcription Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
2	nsv10496	chr4:56336946-56841137	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
3	nsv1005845	chr4:56522075-56980357	Active TSS Bivalent Enhancer Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
4	esv3406311	chr4:56580578-56840877	ZNF genes & repeats Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
5	nsv427681	chr4:56651921-56908209	Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
6	nsv879024	chr4:56742205-56786589	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
7	nsv879025	chr4:56742205-56808607	Enhancers Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10014018	C1orf201	trans	parietal	SCAN
rs10014018	LRRC66	cis	parietal	SCAN

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:56720400-56764600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr4:56721600-56774600	Weak transcription	Fetal Heart	heart
3	chr4:56733800-56772200	Weak transcription	Hela-S3	cervix
4	chr4:56733800-56772800	Strong transcription	Monocytes-CD14+_RO01746	blood
5	chr4:56734400-56773000	Strong transcription	Primary monocytes fromperipheralblood	blood
6	chr4:56734600-56773400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr4:56735000-56768000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr4:56737000-56774800	Weak transcription	Psoas Muscle	Psoas
9	chr4:56737600-56763400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr4:56738000-56771400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr4:56745800-56772800	Weak transcription	Small Intestine	intestine
12	chr4:56747800-56772800	Weak transcription	NHEK	skin
13	chr4:56748000-56763400	Weak transcription	Brain Angular Gyrus	brain
14	chr4:56748000-56763800	Weak transcription	Esophagus	oesophagus
15	chr4:56748000-56770000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr4:56748000-56772000	Weak transcription	NHLF	lung
17	chr4:56748000-56773200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
18	chr4:56748200-56773400	Weak transcription	Gastric	stomach
19	chr4:56748400-56765400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr4:56748400-56770200	Weak transcription	HepG2	liver
21	chr4:56748600-56763600	Weak transcription	Brain Cingulate Gyrus	brain
22	chr4:56748600-56763800	Weak transcription	Aorta	Aorta
23	chr4:56748600-56765800	Weak transcription	Lung	lung
24	chr4:56748600-56766000	Weak transcription	Ovary	ovary
25	chr4:56748600-56767200	Weak transcription	H1 Cell Line	embryonic stem cell
26	chr4:56748600-56768600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr4:56748600-56773000	Weak transcription	Right Ventricle	heart
28	chr4:56748600-56773200	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr4:56748600-56773400	Weak transcription	Colonic Mucosa	Colon
30	chr4:56748600-56776800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr4:56751000-56770200	Weak transcription	Brain Hippocampus Middle	brain
32	chr4:56751400-56776200	Weak transcription	A549	lung
33	chr4:56753800-56767400	Strong transcription	HSMM	muscle
34	chr4:56754800-56765200	Strong transcription	Rectal Mucosa Donor 29	rectum
35	chr4:56754800-56769600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr4:56754800-56772800	Strong transcription	Placenta	Placenta
37	chr4:56755000-56770800	Strong transcription	Primary T cells fromperipheralblood	blood
38	chr4:56755800-56772000	Strong transcription	Rectal Mucosa Donor 31	rectum
39	chr4:56755800-56772200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr4:56756000-56764000	Strong transcription	Duodenum Mucosa	Duodenum
41	chr4:56756000-56764400	Strong transcription	Fetal Intestine Large	intestine
42	chr4:56756000-56765200	Strong transcription	Fetal Thymus	thymus
43	chr4:56756000-56767600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
44	chr4:56756000-56769200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr4:56756000-56773200	Strong transcription	Primary neutrophils fromperipheralblood	blood
46	chr4:56756600-56764200	Weak transcription	Fetal Lung	lung
47	chr4:56756600-56773200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
48	chr4:56757200-56766600	Strong transcription	Adipose Nuclei	Adipose
49	chr4:56758000-56772800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
50	chr4:56758400-56764400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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