Variant report

Variant	rs10146649
Chromosome Location	chr14:69508526-69508527
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	chr14:69503673..69505279-chr14:69507690..69509236,2	MCF-7	breast:

Extended variants
information (count: 78 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10083451	0.96[CEU][hapmap];0.88[TSI][hapmap]
rs10130013	0.96[CEU][hapmap];0.88[TSI][hapmap];0.91[EUR][1000 genomes]
rs10132533	0.88[CEU][hapmap]
rs10134578	0.93[EUR][1000 genomes]
rs10135127	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10135643	0.84[EUR][1000 genomes]
rs10135971	0.95[EUR][1000 genomes]
rs1013762	1.00[JPT][hapmap]
rs10139873	0.96[CEU][hapmap];0.88[TSI][hapmap]
rs10143302	0.96[CEU][hapmap];0.88[TSI][hapmap];0.93[EUR][1000 genomes]
rs10145565	0.96[CEU][hapmap];0.91[GIH][hapmap];0.88[TSI][hapmap];0.94[EUR][1000 genomes]
rs10146339	0.96[CEU][hapmap]
rs10147369	0.96[CEU][hapmap];0.88[TSI][hapmap]
rs10148614	0.85[CEU][hapmap];0.94[EUR][1000 genomes]
rs10149232	0.96[CEU][hapmap]
rs10151376	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10498527	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs1105625	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs11158780	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11158782	0.96[CEU][hapmap];0.88[TSI][hapmap];0.94[EUR][1000 genomes]
rs11158784	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs11158785	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs11158786	1.00[JPT][hapmap]
rs11158787	0.96[CEU][hapmap];0.91[TSI][hapmap];0.91[EUR][1000 genomes]
rs11158789	0.80[ASN][1000 genomes]
rs11158790	0.96[CEU][hapmap];0.88[TSI][hapmap]
rs11158795	0.88[CEU][hapmap];0.86[TSI][hapmap]
rs11158798	0.88[CEU][hapmap]
rs11622889	0.96[CEU][hapmap];0.87[TSI][hapmap]
rs11626985	1.00[JPT][hapmap]
rs11627004	1.00[JPT][hapmap]
rs11627476	1.00[JPT][hapmap]
rs12323738	0.99[EUR][1000 genomes]
rs12431846	0.96[CEU][hapmap];0.88[TSI][hapmap];0.94[EUR][1000 genomes]
rs12434775	0.96[CEU][hapmap];0.88[TSI][hapmap];0.94[EUR][1000 genomes]
rs12435594	0.96[CEU][hapmap];0.88[TSI][hapmap];0.91[EUR][1000 genomes]
rs12589028	0.96[CEU][hapmap];0.88[TSI][hapmap];0.94[EUR][1000 genomes]
rs1275414	0.87[ASN][1000 genomes]
rs1275417	1.00[CHD][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs12879406	0.96[CEU][hapmap]
rs12881049	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12885977	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12886715	0.86[CEU][hapmap]
rs12889849	0.88[CEU][hapmap]
rs12891103	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1626122	0.80[ASN][1000 genomes]
rs1629783	1.00[CHD][hapmap]
rs1710989	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs1710990	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs1892296	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1914004	0.89[CEU][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1950712	1.00[JPT][hapmap]
rs1973677	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2001355	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2001998	0.96[CEU][hapmap];0.88[TSI][hapmap];0.89[EUR][1000 genomes]
rs2056153	0.96[CEU][hapmap];0.88[TSI][hapmap]
rs2176255	1.00[JPT][hapmap]
rs2331918	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28613298	0.96[CEU][hapmap];0.88[TSI][hapmap]
rs3211166	0.83[CEU][hapmap]
rs35538328	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3742905	1.00[JPT][hapmap]
rs4338726	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4899280	0.96[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.84[MKK][hapmap];0.88[TSI][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4902695	1.00[JPT][hapmap]
rs6573869	0.96[CEU][hapmap]
rs7144307	0.84[CEU][hapmap]
rs7144704	1.00[JPT][hapmap]
rs7148045	0.83[CEU][hapmap]
rs7151797	0.85[AMR][1000 genomes]
rs7160629	0.96[CEU][hapmap];0.94[EUR][1000 genomes]
rs761899	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs8008141	1.00[JPT][hapmap]
rs8008184	0.96[CEU][hapmap];0.85[TSI][hapmap]
rs8017103	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9323521	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs9323524	0.96[CEU][hapmap];0.91[GIH][hapmap];0.88[TSI][hapmap]

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	nsv832823	chr14:69388853-69567638	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10146649	WDR22	Cis_1M	lymphoblastoid	RTeQTL
rs10146649	SPTB	cis	cerebellum	SCAN

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:69502200-69508600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr14:69504800-69508600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr14:69504800-69509600	Weak transcription	Pancreas	Pancrea
4	chr14:69505000-69508600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr14:69505200-69509600	Weak transcription	Spleen	Spleen
6	chr14:69505400-69510000	Weak transcription	Fetal Heart	heart
7	chr14:69505400-69510200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr14:69505800-69508800	Weak transcription	Ovary	ovary
9	chr14:69505800-69509200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr14:69505800-69509200	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr14:69505800-69509600	Weak transcription	Esophagus	oesophagus
12	chr14:69505800-69509600	Weak transcription	Fetal Muscle Trunk	muscle
13	chr14:69505800-69509800	Weak transcription	Placenta	Placenta
14	chr14:69505800-69509800	Weak transcription	Left Ventricle	heart
15	chr14:69505800-69509800	Weak transcription	Right Atrium	heart
16	chr14:69505800-69510600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr14:69505800-69510800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr14:69506000-69508600	Weak transcription	Brain Angular Gyrus	brain
19	chr14:69506000-69508800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
20	chr14:69506000-69508800	Weak transcription	Brain Anterior Caudate	brain
21	chr14:69506000-69509400	Enhancers	Primary monocytes fromperipheralblood	blood
22	chr14:69506000-69509400	Weak transcription	Duodenum Smooth Muscle	Duodenum
23	chr14:69506000-69511200	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr14:69506200-69508600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr14:69506200-69508600	Weak transcription	Adipose Nuclei	Adipose
26	chr14:69506200-69509600	Weak transcription	Rectal Smooth Muscle	rectum
27	chr14:69506200-69510000	Weak transcription	Right Ventricle	heart
28	chr14:69506400-69508800	Weak transcription	NHDF-Ad	bronchial
29	chr14:69506400-69509200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
30	chr14:69506400-69509400	Weak transcription	HUES48 Cell Line	embryonic stem cell
31	chr14:69506400-69509600	Weak transcription	Psoas Muscle	Psoas
32	chr14:69506400-69509800	Weak transcription	NHLF	lung
33	chr14:69506400-69510200	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr14:69506400-69510400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr14:69506600-69508600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr14:69506600-69508600	Weak transcription	HSMMtube	muscle
37	chr14:69506600-69508800	Weak transcription	HUES64 Cell Line	embryonic stem cell
38	chr14:69506600-69508800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr14:69506600-69508800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr14:69506600-69509200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr14:69506600-69509400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
42	chr14:69506600-69509400	Weak transcription	Muscle Satellite Cultured Cells	--
43	chr14:69506600-69509400	Weak transcription	Osteobl	bone
44	chr14:69506600-69509600	Weak transcription	HUES6 Cell Line	embryonic stem cell
45	chr14:69506600-69509600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr14:69506600-69509600	Weak transcription	HSMM	muscle
47	chr14:69506600-69511000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
48	chr14:69506800-69508800	Weak transcription	Stomach Smooth Muscle	stomach
49	chr14:69506800-69509000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
50	chr14:69506800-69509800	Weak transcription	Colon Smooth Muscle	Colon

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