Variant report

Variant	rs62098160
Chromosome Location	chr18:43832115-43832116
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	chr18:43752714..43757131-chr18:43829030..43833510,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000152242	Chromatin interaction

Extended variants
information (count: 91 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:90)

rs_ID	r²[population]
rs11082514	0.85[EUR][1000 genomes]
rs11082518	0.90[EUR][1000 genomes]
rs11082519	0.91[ASN][1000 genomes]
rs12457516	0.86[ASN][1000 genomes]
rs12457740	0.81[EUR][1000 genomes]
rs12605945	0.91[EUR][1000 genomes]
rs12607898	0.90[EUR][1000 genomes]
rs12608232	0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12709736	0.90[EUR][1000 genomes]
rs12962307	0.91[EUR][1000 genomes]
rs12962951	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12963787	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12963943	0.86[EUR][1000 genomes]
rs12969147	0.91[EUR][1000 genomes]
rs13381496	0.80[EUR][1000 genomes]
rs13381515	0.82[EUR][1000 genomes]
rs13381523	0.81[EUR][1000 genomes]
rs13381525	0.81[EUR][1000 genomes]
rs13381529	0.82[EUR][1000 genomes]
rs1808946	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs36191490	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3744858	0.90[EUR][1000 genomes]
rs4335852	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4453594	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4453596	0.81[EUR][1000 genomes]
rs4542747	0.90[EUR][1000 genomes]
rs4574015	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4627465	0.81[EUR][1000 genomes]
rs4890317	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4890319	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4890320	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4890321	0.90[EUR][1000 genomes]
rs4890626	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4890628	0.90[EUR][1000 genomes]
rs4890629	0.90[EUR][1000 genomes]
rs4890631	0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4890632	0.91[EUR][1000 genomes]
rs4890633	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4890634	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4890635	0.89[ASN][1000 genomes]
rs55747741	0.81[EUR][1000 genomes]
rs6507677	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6507680	0.86[EUR][1000 genomes]
rs6507682	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6507690	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6507691	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6507692	0.91[EUR][1000 genomes]
rs6507693	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs718513	0.89[EUR][1000 genomes]
rs718514	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7227847	0.88[EUR][1000 genomes]
rs7228365	0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7230154	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7230995	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7231430	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7231820	0.91[EUR][1000 genomes]
rs7234695	0.84[EUR][1000 genomes]
rs7239351	0.90[EUR][1000 genomes]
rs7240354	0.84[EUR][1000 genomes]
rs73425119	0.82[EUR][1000 genomes]
rs8084309	0.82[EUR][1000 genomes]
rs8084829	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8085138	0.86[EUR][1000 genomes]
rs8086610	0.90[EUR][1000 genomes]
rs8086956	0.88[EUR][1000 genomes]
rs8090542	0.86[EUR][1000 genomes]
rs8093407	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8094070	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8094706	0.86[EUR][1000 genomes]
rs8095142	0.87[EUR][1000 genomes]
rs8095799	0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8098751	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8099202	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9675387	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9807157	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9944715	0.91[EUR][1000 genomes]
rs9944767	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9944836	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9945783	0.88[EUR][1000 genomes]
rs9947206	0.93[EUR][1000 genomes]
rs9948282	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9949494	0.90[EUR][1000 genomes]
rs9951624	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9952469	0.91[EUR][1000 genomes]
rs9952654	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9956574	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9959813	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9959905	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9960378	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9963153	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1064031	chr18:43782309-43878806	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs62098160	C18orf25	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:43797000-43833400	Weak transcription	Fetal Muscle Trunk	muscle
2	chr18:43798800-43833800	Weak transcription	HepG2	liver
3	chr18:43799000-43834000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr18:43810200-43832400	Weak transcription	Aorta	Aorta
5	chr18:43820600-43833400	Weak transcription	Ovary	ovary
6	chr18:43825400-43844200	Weak transcription	Fetal Brain Female	brain
7	chr18:43825800-43834000	Weak transcription	Liver	Liver
8	chr18:43826200-43840000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr18:43826600-43847000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr18:43826800-43843600	Weak transcription	Brain Germinal Matrix	brain
11	chr18:43828200-43839600	Weak transcription	Right Atrium	heart
12	chr18:43828400-43839600	Weak transcription	Fetal Stomach	stomach
13	chr18:43828600-43832600	Enhancers	Placenta	Placenta
14	chr18:43829200-43840400	Weak transcription	K562	blood
15	chr18:43829200-43842800	Weak transcription	Fetal Muscle Leg	muscle
16	chr18:43829400-43832400	Enhancers	Primary monocytes fromperipheralblood	blood
17	chr18:43830000-43837600	Weak transcription	Left Ventricle	heart
18	chr18:43830000-43839400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr18:43830000-43854200	Weak transcription	Esophagus	oesophagus
20	chr18:43830400-43839600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr18:43830400-43842800	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr18:43830600-43833400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr18:43830600-43833600	Weak transcription	Stomach Smooth Muscle	stomach
24	chr18:43830600-43847400	Weak transcription	Pancreas	Pancrea
25	chr18:43830800-43832600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr18:43830800-43839800	Weak transcription	Fetal Heart	heart
27	chr18:43830800-43842600	Weak transcription	Gastric	stomach
28	chr18:43831000-43832600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr18:43831000-43832600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
30	chr18:43831000-43832800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr18:43831000-43832800	Weak transcription	Fetal Thymus	thymus
32	chr18:43831000-43832800	Weak transcription	NH-A	brain
33	chr18:43831000-43832800	Weak transcription	NHDF-Ad	bronchial
34	chr18:43831000-43832800	Weak transcription	Osteobl	bone
35	chr18:43831000-43833000	Weak transcription	Muscle Satellite Cultured Cells	--
36	chr18:43831000-43833000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr18:43831000-43833000	Weak transcription	Skeletal Muscle Male	skeletal muscle
38	chr18:43831000-43833400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr18:43831000-43833600	Enhancers	Primary neutrophils fromperipheralblood	blood
40	chr18:43831000-43833800	Weak transcription	Fetal Lung	lung
41	chr18:43831000-43834000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr18:43831000-43834000	Weak transcription	Brain Anterior Caudate	brain
43	chr18:43831000-43834000	Weak transcription	HUVEC	blood vessel
44	chr18:43831000-43834400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
45	chr18:43831000-43836800	Weak transcription	Sigmoid Colon	Sigmoid Colon
46	chr18:43831000-43839600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr18:43831000-43839600	Weak transcription	HUES48 Cell Line	embryonic stem cell
48	chr18:43831000-43839600	Weak transcription	HUES6 Cell Line	embryonic stem cell
49	chr18:43831000-43839800	Weak transcription	HSMMtube	muscle
50	chr18:43831000-43840000	Weak transcription	Rectal Smooth Muscle	rectum

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