Variant report

Variant	rs4945850
Chromosome Location	chr6:110447643-110447644
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 71 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs11153226	1.00[ASW][hapmap];1.00[CEU][hapmap];0.93[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];0.87[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11751590	0.84[ASW][hapmap];0.93[CHB][hapmap];0.91[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.90[TSI][hapmap];0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11757055	0.84[ASW][hapmap];0.93[CHB][hapmap];0.91[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.90[TSI][hapmap];0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12110744	0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs12660119	0.93[ASN][1000 genomes]
rs12660791	0.84[ASW][hapmap];0.93[CHB][hapmap];0.91[CHD][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.90[TSI][hapmap];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12662013	0.93[ASN][1000 genomes]
rs12665849	0.90[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12665858	0.87[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1462490	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1462492	0.93[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs1462493	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2002630	0.95[ASN][1000 genomes]
rs4257894	1.00[ASW][hapmap];0.94[CEU][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4299857	0.92[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs4339500	0.84[ASW][hapmap];0.93[CHB][hapmap];0.88[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.90[TSI][hapmap];0.87[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4509164	1.00[ASW][hapmap];1.00[CEU][hapmap];0.93[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];0.94[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4945851	0.94[CEU][hapmap];0.86[CHB][hapmap];0.84[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4947048	0.90[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs4947051	0.84[ASW][hapmap];0.93[CHB][hapmap];0.91[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.90[TSI][hapmap];0.90[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4947058	0.93[CHB][hapmap];0.88[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.90[TSI][hapmap];0.91[ASN][1000 genomes]
rs56122480	0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs56135788	0.99[ASN][1000 genomes]
rs56287427	0.98[ASN][1000 genomes]
rs57983455	0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs60495849	0.98[ASN][1000 genomes]
rs61020234	0.95[ASN][1000 genomes]
rs6568633	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6568634	0.93[CHB][hapmap];0.91[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.90[TSI][hapmap]
rs6913554	0.85[CHB][hapmap];0.91[CHD][hapmap];0.82[GIH][hapmap];0.94[MEX][hapmap];0.95[ASN][1000 genomes]
rs6915379	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6918148	0.84[CHD][hapmap];0.85[GIH][hapmap];0.92[JPT][hapmap];0.87[MEX][hapmap];0.89[TSI][hapmap];0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6925392	0.96[ASN][1000 genomes]
rs6926540	0.90[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs6927667	0.90[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs6927697	1.00[ASW][hapmap];1.00[CEU][hapmap];0.93[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6927722	0.84[ASW][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];0.90[TSI][hapmap];0.98[ASN][1000 genomes]
rs6928684	0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6938106	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6938139	0.93[CHB][hapmap];0.88[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.90[TSI][hapmap];0.91[ASN][1000 genomes]
rs6938653	0.93[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs719849	0.99[ASN][1000 genomes]
rs73533834	0.86[ASN][1000 genomes]
rs73535810	0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs73535817	0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73535821	0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73535837	0.90[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs73535838	0.90[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs73537927	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73537938	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73537949	0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7744828	0.93[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs7747842	0.83[ASN][1000 genomes]
rs7766850	0.84[ASN][1000 genomes]
rs9372247	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9372248	0.84[ASN][1000 genomes]
rs9374156	0.86[ASN][1000 genomes]
rs9400359	0.86[ASN][1000 genomes]
rs9400360	0.86[ASN][1000 genomes]
rs9481047	0.93[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs9481048	0.93[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs9487317	0.84[ASN][1000 genomes]
rs9487318	0.86[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs9487319	0.93[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs9487321	0.93[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv886535	chr6:110377006-110551463	Strong transcription Genic enhancers Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats 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	3 gene(s)	inside rSNPs	diseases
2	esv2757188	chr6:110389926-110504680	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	esv2759462	chr6:110389926-110504680	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	esv1792799	chr6:110411065-110566597	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
5	nsv886536	chr6:110426046-110502831	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv948824	chr6:110443685-110889332	Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs4945850	WASF1	cis	Muscle Skeletal	GTEx
rs4945850	WASF1	cis	Artery Tibial	GTEx
rs4945850	WASF1	Cis_1M	lymphoblastoid	RTeQTL
rs4945850	WASF1	cis	lymphoblastoid	seeQTL

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:110419000-110449600	Weak transcription	Brain Cingulate Gyrus	brain
2	chr6:110419000-110461800	Weak transcription	HSMMtube	muscle
3	chr6:110419200-110449600	Weak transcription	Brain Hippocampus Middle	brain
4	chr6:110423200-110448400	Weak transcription	Muscle Satellite Cultured Cells	--
5	chr6:110423400-110450000	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr6:110423400-110459000	Weak transcription	Fetal Stomach	stomach
7	chr6:110423400-110459200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr6:110423400-110459200	Weak transcription	Aorta	Aorta
9	chr6:110425000-110456400	Weak transcription	HUVEC	blood vessel
10	chr6:110426800-110448000	Weak transcription	Pancreas	Pancrea
11	chr6:110427600-110459600	Weak transcription	NHEK	skin
12	chr6:110428200-110450000	Weak transcription	HepG2	liver
13	chr6:110429800-110453600	Weak transcription	Liver	Liver
14	chr6:110429800-110459200	Weak transcription	Stomach Smooth Muscle	stomach
15	chr6:110430000-110449800	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr6:110430000-110452200	Weak transcription	Primary hematopoietic stem cells	blood
17	chr6:110430400-110450200	Weak transcription	NHDF-Ad	bronchial
18	chr6:110431400-110459200	Weak transcription	HSMM	muscle
19	chr6:110436600-110449600	Weak transcription	Brain Anterior Caudate	brain
20	chr6:110436800-110449600	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr6:110438000-110449800	Weak transcription	HUES6 Cell Line	embryonic stem cell
22	chr6:110438000-110449800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr6:110438000-110459200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr6:110441600-110463400	Weak transcription	A549	lung
25	chr6:110443200-110449800	Weak transcription	H1 Cell Line	embryonic stem cell
26	chr6:110443400-110449800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr6:110443400-110452200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
28	chr6:110443800-110449800	Weak transcription	Fetal Brain Male	brain
29	chr6:110443800-110459200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr6:110444000-110449600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr6:110444000-110449800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
32	chr6:110444000-110483800	Weak transcription	Fetal Kidney	kidney
33	chr6:110444200-110450000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
34	chr6:110444200-110459200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr6:110444200-110459200	Weak transcription	Ovary	ovary
36	chr6:110444600-110462000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr6:110445200-110450000	Weak transcription	Fetal Brain Female	brain
38	chr6:110445200-110459000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
39	chr6:110445200-110482400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr6:110445400-110448000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr6:110445400-110449000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr6:110445400-110449800	Weak transcription	Fetal Lung	lung
43	chr6:110445800-110451800	Weak transcription	Brain Germinal Matrix	brain
44	chr6:110446200-110449200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr6:110446400-110449000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr6:110446600-110447800	Weak transcription	Primary B cells from cord blood	blood
47	chr6:110446600-110449200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr6:110446600-110458600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr6:110446800-110448200	Strong transcription	HUES64 Cell Line	embryonic stem cell
50	chr6:110446800-110449600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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