Variant report

Variant	rs10761164
Chromosome Location	chr9:95323548-95323549
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:95321743..95324130-chr9:95360863..95362407,2	MCF-7	breast:

Extended variants
information (count: 135 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:132)

rs_ID	r²[population]
rs10114912	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10114932	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10115222	0.83[CEU][hapmap]
rs10115290	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10116241	0.91[CEU][hapmap];0.90[CHB][hapmap];0.94[JPT][hapmap]
rs10117627	0.84[EUR][1000 genomes]
rs10117680	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10118107	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10118939	0.85[CEU][hapmap];0.80[JPT][hapmap];0.87[YRI][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10120329	0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10123738	0.80[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs10125450	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10125587	0.81[CEU][hapmap]
rs10283572	0.87[CEU][hapmap];0.91[CHB][hapmap];0.88[JPT][hapmap]
rs10429459	0.95[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10453241	0.88[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap]
rs10514815	0.96[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1053441	0.88[CEU][hapmap];0.91[CHB][hapmap];0.89[JPT][hapmap]
rs1053446	0.88[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap]
rs1075397	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10761154	0.92[CEU][hapmap];0.88[CHB][hapmap];0.89[JPT][hapmap]
rs10761155	0.88[CEU][hapmap]
rs10761158	0.96[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10761163	0.91[YRI][hapmap];0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10820971	0.88[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap]
rs10820980	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs10820986	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10820988	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10820989	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10820990	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10820994	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10821008	0.83[CEU][hapmap]
rs10992322	0.92[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap]
rs10992347	0.92[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10992349	0.85[CEU][hapmap]
rs10992365	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10992366	0.85[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10992375	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10992393	0.84[CEU][hapmap]
rs1121978	0.88[CEU][hapmap]
rs1121979	0.83[CEU][hapmap]
rs11788511	0.80[JPT][hapmap]
rs11788523	0.81[EUR][1000 genomes]
rs11794346	0.88[CEU][hapmap];0.81[EUR][1000 genomes]
rs12335553	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12336415	0.88[CEU][hapmap]
rs12338938	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12341817	0.88[CEU][hapmap];0.81[EUR][1000 genomes]
rs12342019	0.88[CEU][hapmap]
rs12343820	0.88[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13301492	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13301537	0.88[CEU][hapmap]
rs13301652	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1535754	0.96[CEU][hapmap];0.90[CHB][hapmap];0.89[JPT][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1535756	0.85[CEU][hapmap]
rs1924243	0.91[CHB][hapmap];0.90[JPT][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1924244	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1980848	0.88[CEU][hapmap];0.81[EUR][1000 genomes]
rs2025388	0.92[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap]
rs2026585	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2094281	0.88[CEU][hapmap];0.86[YRI][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2104533	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2274966	0.92[CEU][hapmap];0.82[CHB][hapmap];0.90[JPT][hapmap]
rs2296666	0.96[CEU][hapmap];0.80[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2296667	0.92[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap]
rs2296669	0.88[CEU][hapmap]
rs2516567	0.92[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap]
rs2516568	0.80[CEU][hapmap]
rs2761678	0.80[JPT][hapmap]
rs2761681	0.83[CEU][hapmap]
rs2895219	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3739606	0.96[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3780347	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3927488	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4302908	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743873	0.88[CEU][hapmap];0.81[EUR][1000 genomes]
rs4743874	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4743875	0.84[CEU][hapmap]
rs4744133	0.96[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4744134	0.92[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap]
rs4744135	0.96[CEU][hapmap];0.80[CHB][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4744136	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs4744137	0.85[CEU][hapmap];0.80[JPT][hapmap];0.87[YRI][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4744138	0.83[CEU][hapmap];0.86[YRI][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4744139	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4744141	0.88[CEU][hapmap];0.86[YRI][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6479422	0.88[CEU][hapmap]
rs6479423	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7020104	0.84[CEU][hapmap]
rs7022562	0.96[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap]
rs7026361	0.92[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap]
rs7027595	0.83[CEU][hapmap]
rs7029939	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7031567	0.96[CEU][hapmap];0.80[CHB][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7033979	0.85[CEU][hapmap]
rs7037075	0.92[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap]
rs7037194	0.96[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap]
rs7043152	0.83[CEU][hapmap]
rs7045409	0.92[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap]
rs7045572	0.88[CEU][hapmap]
rs747628	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs747629	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7847534	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7847929	0.92[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap]
rs7848391	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7849788	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7849927	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7850432	0.91[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap]
rs7850528	0.88[CEU][hapmap]
rs7852510	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7852698	0.84[CEU][hapmap]
rs7853859	0.92[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap]
rs7860774	0.82[EUR][1000 genomes]
rs7860786	0.96[CEU][hapmap];0.80[CHB][hapmap];0.95[JPT][hapmap];0.90[EUR][1000 genomes]
rs7863049	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7864575	0.88[CEU][hapmap];0.86[YRI][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7864630	0.92[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap]
rs7865019	0.88[CEU][hapmap];0.86[YRI][hapmap];0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7868013	0.88[CEU][hapmap]
rs7869521	0.81[CEU][hapmap]
rs7869742	0.92[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap]
rs7872610	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7872644	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7873390	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7873397	0.84[CEU][hapmap]
rs8067	0.92[CEU][hapmap];0.85[JPT][hapmap]
rs927865	0.96[CEU][hapmap];0.80[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9299404	0.92[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap]
rs9299405	0.88[CEU][hapmap];0.86[YRI][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs968040	0.87[CEU][hapmap];0.86[YRI][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs987553	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs987554	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[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	nsv893573	chr9:94974188-95355719	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
2	nsv1047337	chr9:95105638-95347484	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv1052846	chr9:95291909-95366109	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10761164	CENPP	cis	Esophagus Muscularis	GTEx

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95308600-95324000	Weak transcription	Fetal Intestine Small	intestine
2	chr9:95310800-95323600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr9:95320600-95324200	Weak transcription	Small Intestine	intestine
4	chr9:95321200-95325400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr9:95321400-95324000	Weak transcription	Esophagus	oesophagus
6	chr9:95321600-95325400	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr9:95321800-95326400	Weak transcription	Fetal Muscle Trunk	muscle
8	chr9:95322000-95324200	Weak transcription	Adipose Nuclei	Adipose
9	chr9:95323200-95324800	Weak transcription	Psoas Muscle	Psoas
10	chr9:95323400-95323600	Enhancers	HSMMtube	muscle
11	chr9:95323400-95324200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr9:95323400-95324200	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr9:95323400-95324400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr9:95323400-95324400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr9:95323400-95324400	Enhancers	HMEC	breast
16	chr9:95323400-95324400	Enhancers	NHEK	skin
17	chr9:95323400-95325200	Enhancers	Rectal Mucosa Donor 29	rectum
18	chr9:95323400-95325600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr9:95323400-95325800	Enhancers	Rectal Mucosa Donor 31	rectum
20	chr9:95323400-95326600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr9:95323400-95327800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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