Variant report

Variant	rs7236073
Chromosome Location	chr18:9383645-9383646
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	chr18:9375540..9377830-chr18:9382841..9384543,2	MCF-7	breast:

Extended variants
information (count: 96 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:91)

rs_ID	r²[population]
rs1074159	0.99[ASN][1000 genomes]
rs10853376	0.83[ASN][1000 genomes]
rs11081473	0.83[ASN][1000 genomes]
rs11081474	0.83[ASN][1000 genomes]
rs11873989	0.83[ASN][1000 genomes]
rs11875585	0.83[ASN][1000 genomes]
rs11875640	0.83[ASN][1000 genomes]
rs11876171	0.83[ASN][1000 genomes]
rs11876202	0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs11878159	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11878163	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12052039	0.98[ASN][1000 genomes]
rs12604438	0.83[ASN][1000 genomes]
rs12956692	0.84[CHB][hapmap];0.83[ASN][1000 genomes]
rs12959183	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs12962014	0.85[CHB][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs12962166	1.00[ASN][1000 genomes]
rs12967229	1.00[CHB][hapmap];0.97[CHD][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs13285	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1443594	0.83[ASN][1000 genomes]
rs1443595	0.83[ASN][1000 genomes]
rs1443599	0.83[ASN][1000 genomes]
rs1605473	0.95[ASN][1000 genomes]
rs1605474	0.95[CHB][hapmap];0.95[JPT][hapmap];0.98[ASN][1000 genomes]
rs1605476	0.94[CHB][hapmap];0.94[JPT][hapmap];0.93[ASN][1000 genomes]
rs2028655	0.85[CHB][hapmap];0.81[JPT][hapmap]
rs2048146	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2120317	0.83[ASN][1000 genomes]
rs2298545	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs2298550	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs35584133	0.95[ASN][1000 genomes]
rs3786173	0.85[CHB][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs3859293	0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs4567794	0.85[CHB][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs4797366	0.94[ASN][1000 genomes]
rs4798794	0.83[ASN][1000 genomes]
rs4798797	0.98[ASN][1000 genomes]
rs4798801	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4798802	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs4798804	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs4798805	0.98[ASN][1000 genomes]
rs4798806	0.93[ASN][1000 genomes]
rs4798808	0.95[ASN][1000 genomes]
rs57524426	0.81[ASN][1000 genomes]
rs62087478	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6506652	0.83[ASN][1000 genomes]
rs6506653	0.83[ASN][1000 genomes]
rs6506654	0.89[CHB][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs6506655	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6506661	1.00[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.87[MEX][hapmap];0.97[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7228819	0.99[ASN][1000 genomes]
rs7230171	0.98[ASN][1000 genomes]
rs7230328	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7233751	0.85[CHB][hapmap];0.81[JPT][hapmap]
rs7233925	0.83[ASN][1000 genomes]
rs7234330	0.99[ASN][1000 genomes]
rs7234762	0.85[CHB][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs7236396	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7237136	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs7237485	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs7239225	1.00[ASN][1000 genomes]
rs7240798	1.00[ASN][1000 genomes]
rs7242488	0.97[ASN][1000 genomes]
rs7243376	0.98[ASN][1000 genomes]
rs7244054	0.99[ASN][1000 genomes]
rs7245034	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs72948167	0.99[ASN][1000 genomes]
rs7846	0.95[ASN][1000 genomes]
rs8085920	0.83[ASN][1000 genomes]
rs8085947	0.96[ASN][1000 genomes]
rs8087892	0.85[CHB][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs8093045	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8095060	0.81[JPT][hapmap]
rs8096911	0.83[ASN][1000 genomes]
rs8096988	0.83[ASN][1000 genomes]
rs8097654	0.88[CHB][hapmap];0.84[JPT][hapmap];0.83[ASN][1000 genomes]
rs8097838	0.99[ASN][1000 genomes]
rs8099673	0.98[ASN][1000 genomes]
rs925100	0.85[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs9635818	0.81[ASN][1000 genomes]
rs9635819	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9635873	0.81[ASN][1000 genomes]
rs965280	0.99[ASN][1000 genomes]
rs9675975	1.00[ASN][1000 genomes]
rs9944562	0.99[ASN][1000 genomes]
rs9956536	0.85[CHB][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs9957701	0.84[CHB][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs9959183	0.97[ASN][1000 genomes]
rs9963516	0.92[ASN][1000 genomes]
rs9966961	0.98[ASN][1000 genomes]
rs9967388	0.84[CHB][hapmap];0.81[JPT][hapmap];0.83[ASN][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	nsv916373	chr18:9026803-9592201	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
2	nsv1056407	chr18:9144345-9553764	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
3	nsv1062025	chr18:9287249-9552470	Flanking Active TSS Strong transcription Bivalent/Poised TSS Active TSS Enhancers Weak transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
4	nsv543643	chr18:9287249-9552470	ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
5	nsv909365	chr18:9299538-9400422	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs7236073	TWSG1	Cis_1M	lymphoblastoid	RTeQTL
rs7236073	L3MBTL4	cis	cerebellum	SCAN
rs7236073	TWSG1	cis	lymphoblastoid	seeQTL

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:9341200-9391400	Weak transcription	Liver	Liver
2	chr18:9341200-9403800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr18:9344400-9404200	Weak transcription	Primary T cells from cord blood	blood
4	chr18:9360400-9403000	Weak transcription	Primary T cells fromperipheralblood	blood
5	chr18:9364800-9409400	Weak transcription	Aorta	Aorta
6	chr18:9366600-9389400	Weak transcription	HSMM	muscle
7	chr18:9366600-9390600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr18:9366600-9390800	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr18:9366600-9396200	Weak transcription	NH-A	brain
10	chr18:9366600-9406000	Weak transcription	Esophagus	oesophagus
11	chr18:9366800-9390600	Weak transcription	HUVEC	blood vessel
12	chr18:9366800-9397000	Weak transcription	NHEK	skin
13	chr18:9367800-9385400	Weak transcription	Lung	lung
14	chr18:9367800-9390800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr18:9367800-9395600	Weak transcription	Left Ventricle	heart
16	chr18:9368200-9389400	Weak transcription	GM12878-XiMat	blood
17	chr18:9368200-9390400	Weak transcription	Primary hematopoietic stem cells	blood
18	chr18:9368200-9390600	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr18:9368400-9397200	Weak transcription	Placenta	Placenta
20	chr18:9368600-9389400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr18:9368600-9390200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr18:9368600-9390400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
23	chr18:9368600-9390400	Weak transcription	Fetal Muscle Trunk	muscle
24	chr18:9370000-9390600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr18:9373200-9389400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr18:9376600-9390000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr18:9377400-9389400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr18:9379400-9389400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr18:9380800-9390400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
30	chr18:9381000-9390400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr18:9381200-9387400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr18:9381200-9390000	Weak transcription	NHLF	lung
33	chr18:9381200-9390400	Weak transcription	Fetal Muscle Leg	muscle
34	chr18:9381200-9391200	Weak transcription	Osteobl	bone
35	chr18:9381200-9391800	Weak transcription	HSMMtube	muscle
36	chr18:9381200-9399400	Weak transcription	Colon Smooth Muscle	Colon
37	chr18:9381400-9388200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr18:9381400-9389400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr18:9381400-9389600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr18:9381400-9389800	Weak transcription	Fetal Lung	lung
41	chr18:9381400-9390600	Weak transcription	Cortex derived primary cultured neurospheres	brain
42	chr18:9381400-9390600	Weak transcription	Brain Hippocampus Middle	brain
43	chr18:9381400-9390800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
44	chr18:9381400-9391200	Weak transcription	Stomach Smooth Muscle	stomach
45	chr18:9381400-9391200	Weak transcription	NHDF-Ad	bronchial
46	chr18:9381400-9391400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr18:9381400-9391400	Weak transcription	Brain Anterior Caudate	brain
48	chr18:9381400-9391400	Weak transcription	Brain Substantia Nigra	brain
49	chr18:9381400-9395800	Weak transcription	Ovary	ovary
50	chr18:9381400-9404600	Weak transcription	Rectal Smooth Muscle	rectum

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