Variant report

Variant	rs8025406
Chromosome Location	chr15:34469400-34469401
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	chr15:34469294..34472119-chr15:34650020..34652509,2	K562	blood:
2	chr15:34464003..34466494-chr15:34466732..34469495,2	K562	blood:

Extended variants
information (count: 76 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10775222	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10851950	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10851952	0.92[CEU][hapmap];0.86[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];0.89[JPT][hapmap];0.87[LWK][hapmap];0.95[MEX][hapmap];0.95[MKK][hapmap];0.95[TSI][hapmap];0.81[ASN][1000 genomes]
rs11072998	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11073010	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs11073014	0.81[ASN][1000 genomes]
rs11635964	0.92[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs11636442	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11852537	0.81[CEU][hapmap];0.93[CHB][hapmap];0.89[JPT][hapmap];0.95[ASN][1000 genomes]
rs11854686	0.84[ASN][1000 genomes]
rs11857205	0.84[ASN][1000 genomes]
rs11857684	0.93[CHB][hapmap];0.89[JPT][hapmap];0.95[ASN][1000 genomes]
rs12437551	0.88[CEU][hapmap];0.93[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];0.89[JPT][hapmap];0.82[LWK][hapmap];0.86[MEX][hapmap];0.85[MKK][hapmap];0.83[TSI][hapmap];0.80[ASN][1000 genomes]
rs12441003	0.82[ASN][1000 genomes]
rs12591181	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12594077	0.93[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs12917397	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs16958829	0.81[CEU][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs16958835	0.83[CHD][hapmap]
rs16958848	0.95[ASN][1000 genomes]
rs1836977	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1836978	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1978810	0.93[CHB][hapmap];0.89[JPT][hapmap];0.84[ASN][1000 genomes]
rs2339368	0.94[ASN][1000 genomes]
rs2339369	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28538047	0.95[ASN][1000 genomes]
rs28768700	0.88[ASN][1000 genomes]
rs28813796	0.95[ASN][1000 genomes]
rs4780226	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56731918	0.81[ASN][1000 genomes]
rs57530092	0.96[ASN][1000 genomes]
rs57699120	0.81[ASN][1000 genomes]
rs58875083	0.81[ASN][1000 genomes]
rs59635553	0.96[ASN][1000 genomes]
rs60749797	0.95[ASN][1000 genomes]
rs6495580	0.96[ASN][1000 genomes]
rs6495622	0.81[CEU][hapmap];0.93[GIH][hapmap];0.89[TSI][hapmap]
rs7168761	0.80[CHD][hapmap]
rs7172633	0.96[ASN][1000 genomes]
rs7173244	0.95[ASN][1000 genomes]
rs7174442	0.81[CEU][hapmap];0.93[CHB][hapmap];0.97[CHD][hapmap];0.95[JPT][hapmap];0.86[MEX][hapmap];0.96[ASN][1000 genomes]
rs7174586	0.95[ASN][1000 genomes]
rs7175168	0.94[ASN][1000 genomes]
rs7178002	0.86[CHD][hapmap]
rs7178203	0.81[CEU][hapmap];0.93[CHB][hapmap];0.97[CHD][hapmap];0.95[JPT][hapmap];0.86[MEX][hapmap];0.96[ASN][1000 genomes]
rs7178988	0.93[CHB][hapmap];0.89[JPT][hapmap];0.81[ASN][1000 genomes]
rs7181687	0.93[CHB][hapmap];0.97[CHD][hapmap];0.89[JPT][hapmap];0.86[MEX][hapmap];0.81[ASN][1000 genomes]
rs7181902	0.93[CHB][hapmap];0.94[CHD][hapmap];0.89[JPT][hapmap];0.86[MEX][hapmap];0.81[ASN][1000 genomes]
rs73376164	0.90[ASN][1000 genomes]
rs73378126	0.81[ASN][1000 genomes]
rs73378128	0.96[ASN][1000 genomes]
rs73378138	0.96[ASN][1000 genomes]
rs73378141	0.93[ASN][1000 genomes]
rs73378144	0.81[ASN][1000 genomes]
rs7497840	0.94[ASN][1000 genomes]
rs7497951	0.95[ASN][1000 genomes]
rs8025730	0.93[CHB][hapmap];0.94[JPT][hapmap];0.92[ASN][1000 genomes]
rs8027499	0.92[CEU][hapmap];0.93[CHB][hapmap];0.89[JPT][hapmap];0.82[ASN][1000 genomes]
rs8027830	0.81[ASN][1000 genomes]
rs8028027	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs8028932	0.96[ASN][1000 genomes]
rs8028950	0.96[ASN][1000 genomes]
rs8031102	0.92[ASN][1000 genomes]
rs8034315	0.81[ASN][1000 genomes]
rs8035493	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8036468	0.93[CHB][hapmap];0.86[CHD][hapmap];0.93[GIH][hapmap];0.89[JPT][hapmap];0.86[MEX][hapmap];0.80[TSI][hapmap]
rs8036791	0.81[ASN][1000 genomes]
rs8040071	0.83[CHD][hapmap]
rs8040732	0.80[CEU][hapmap];0.86[CHB][hapmap];0.97[CHD][hapmap];0.95[JPT][hapmap];0.86[MEX][hapmap];0.92[ASN][1000 genomes]
rs8040861	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8043216	1.00[CHB][hapmap];0.89[JPT][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9920654	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9972505	0.93[CHB][hapmap];0.94[CHD][hapmap];0.89[JPT][hapmap];0.86[MEX][hapmap];0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1035579	chr15:34363159-34501115	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	esv3507159	chr15:34456709-34485891	Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	n/a
3	esv3507160	chr15:34456709-34485891	ZNF genes & repeats Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs8025406	NOP10	cis	cerebellum	SCAN

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:34453600-34474600	Weak transcription	Colon Smooth Muscle	Colon
2	chr15:34454000-34477400	Weak transcription	HSMM	muscle
3	chr15:34454200-34497800	Weak transcription	Osteobl	bone
4	chr15:34454600-34501200	Weak transcription	Colonic Mucosa	Colon
5	chr15:34454800-34501000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr15:34459000-34478400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr15:34464600-34500400	Weak transcription	Hela-S3	cervix
8	chr15:34464800-34477000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr15:34465000-34477800	Weak transcription	Thymus	Thymus
10	chr15:34466400-34500400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr15:34466600-34473400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr15:34466600-34482800	Weak transcription	NHDF-Ad	bronchial
13	chr15:34466800-34475200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr15:34466800-34477400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr15:34466800-34477600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr15:34466800-34477600	Weak transcription	Primary B cells from cord blood	blood
17	chr15:34467000-34470200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr15:34467000-34475200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr15:34467000-34477200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr15:34467000-34500800	Weak transcription	Primary T helper cells fromperipheralblood	blood
21	chr15:34467200-34478400	Weak transcription	Lung	lung
22	chr15:34467200-34491400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr15:34467200-34500200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr15:34467400-34486200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr15:34468000-34478400	Weak transcription	Dnd41	blood
26	chr15:34468000-34496400	Weak transcription	Fetal Lung	lung
27	chr15:34468000-34497800	Weak transcription	NHEK	skin
28	chr15:34468200-34475200	Weak transcription	A549	lung
29	chr15:34468200-34478200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr15:34468200-34485800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
31	chr15:34468200-34498000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
32	chr15:34468400-34472200	Weak transcription	Cortex derived primary cultured neurospheres	brain
33	chr15:34468400-34477000	Weak transcription	Primary T cells from cord blood	blood
34	chr15:34468600-34472200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr15:34468600-34475400	Weak transcription	Placenta	Placenta
36	chr15:34468600-34480600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr15:34468800-34477400	Weak transcription	Fetal Stomach	stomach
38	chr15:34469200-34477200	Weak transcription	Fetal Muscle Leg	muscle
39	chr15:34469400-34469600	Weak transcription	Left Ventricle	heart
40	chr15:34469400-34470200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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