Variant report

Variant	rs912264
Chromosome Location	chr9:95370321-95370322
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MAFK	chr9:95370210-95370385	K562	blood:	n/a	chr9:95370268-95370279 chr9:95370264-95370274 chr9:95370261-95370275 chr9:95370268-95370279 chr9:95370267-95370278 chr9:95370263-95370278
2	CTCF	chr9:95370320-95370470	AG04449	skin:	n/a	n/a
3	RAD21	chr9:95370070-95370384	SK-N-SH_RA	brain:	n/a	n/a
4	EP300	chr9:95369873-95370567	SK-N-SH	brain:	n/a	chr9:95370107-95370115
5	EP300	chr9:95370025-95370399	SK-N-SH_RA	brain:	n/a	chr9:95370107-95370115
6	STAT3	chr9:95370278-95370372	MCF10A-Er-Src	breast:	n/a	n/a
7	TCF12	chr9:95369832-95370750	SK-N-SH	brain:	n/a	n/a
8	YY1	chr9:95370019-95370353	SK-N-SH	brain:	n/a	chr9:95370175-95370183
9	YY1	chr9:95370047-95370359	SK-N-SH_RA	brain:	n/a	chr9:95370175-95370183
10	GATA3	chr9:95369894-95370574	SK-N-SH	brain:	n/a	n/a
11	FOXA2	chr9:95370090-95370378	HepG2	liver:	n/a	n/a
12	YY1	chr9:95370044-95370350	SK-N-SH_RA	brain:	n/a	chr9:95370175-95370183
13	POLR2A	chr9:95369969-95370531	SK-N-SH	brain:	n/a	n/a
14	POLR2A	chr9:95370266-95370401	Hela-S3	cervix:	n/a	n/a
15	POLR2A	chr9:95370064-95370348	SK-N-SH	brain:	n/a	n/a
16	MAFK	chr9:95370171-95370386	HepG2	liver:	n/a	chr9:95370268-95370279 chr9:95370264-95370274 chr9:95370261-95370275 chr9:95370268-95370279 chr9:95370267-95370278 chr9:95370263-95370278
17	NFIC	chr9:95369236-95370690	SK-N-SH	brain:	n/a	n/a
18	MAX	chr9:95370038-95370453	SK-N-SH	brain:	n/a	n/a
19	POLR2A	chr9:95370299-95370388	GM12878	blood:	n/a	n/a
20	MAFF	chr9:95370098-95370335	HepG2	liver:	n/a	n/a
21	TCF12	chr9:95369798-95370693	SK-N-SH	brain:	n/a	n/a
22	PBX3	chr9:95369877-95370625	SK-N-SH	brain:	n/a	n/a
23	EP300	chr9:95370034-95370421	SK-N-SH_RA	brain:	n/a	chr9:95370107-95370115
24	PBX3	chr9:95369965-95370587	SK-N-SH	brain:	n/a	n/a
25	RAD21	chr9:95370145-95370321	SK-N-SH_RA	brain:	n/a	n/a
26	MAFK	chr9:95370135-95370373	HepG2	liver:	n/a	chr9:95370268-95370279 chr9:95370264-95370274 chr9:95370261-95370275 chr9:95370268-95370279 chr9:95370267-95370278 chr9:95370263-95370278
27	MAFK	chr9:95370070-95370593	IMR90	lung:	n/a	chr9:95370268-95370279 chr9:95370264-95370274 chr9:95370261-95370275 chr9:95370268-95370279 chr9:95370267-95370278 chr9:95370263-95370278

No.	Distal block	Cell Line	Cell type
1	chr9:95368898..95371763-chr9:95431399..95433755,2	MCF-7	breast:
2	chr9:95368081..95371293-chr9:95378111..95381332,3	MCF-7	breast:
3	chr9:95364179..95365756-chr9:95368617..95371594,2	K562	blood:
4	chr9:95368614..95370492-chr9:95378755..95380528,2	K562	blood:
5	chr9:95369063..95371950-chr9:95374087..95377322,4	K562	blood:

Variant related genes	Relation type
CENPP	TF binding region
ENSG00000127080	Chromatin interaction

Extended variants
information (count: 104 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:104)

rs_ID	r²[population]
rs10491806	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10761156	1.00[YRI][hapmap]
rs10820997	0.81[CHB][hapmap];0.81[AMR][1000 genomes]
rs10820998	1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10821001	0.92[AMR][1000 genomes]
rs10821003	0.92[AMR][1000 genomes]
rs10821004	0.92[AMR][1000 genomes]
rs10821005	0.92[AMR][1000 genomes]
rs10821011	0.90[AMR][1000 genomes]
rs10821012	0.80[CHB][hapmap]
rs10821014	0.92[AMR][1000 genomes]
rs10992367	0.91[CEU][hapmap];0.82[CHB][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10992380	0.91[CEU][hapmap];0.82[CHB][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10992382	0.91[CEU][hapmap];0.88[CHB][hapmap];0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10992384	1.00[CEU][hapmap];0.88[CHB][hapmap];0.82[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10992390	1.00[CEU][hapmap];0.82[CHB][hapmap];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10992392	1.00[CEU][hapmap];0.81[CHB][hapmap];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10992396	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10992406	0.82[CHB][hapmap]
rs10992407	0.86[CEU][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10992408	0.84[CEU][hapmap];0.82[CHB][hapmap];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10992409	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10992412	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10992413	0.82[CHB][hapmap]
rs10992414	0.86[CEU][hapmap];0.92[AMR][1000 genomes]
rs10992416	0.92[AMR][1000 genomes]
rs10992417	0.92[AMR][1000 genomes]
rs10992418	0.81[AMR][1000 genomes]
rs10992420	0.92[AMR][1000 genomes]
rs10992422	0.92[AMR][1000 genomes]
rs10992423	0.92[AMR][1000 genomes]
rs10992434	0.80[CHB][hapmap]
rs10992437	0.92[AMR][1000 genomes]
rs10992442	0.80[CHB][hapmap]
rs10992444	0.80[CHB][hapmap]
rs10992445	0.80[CHB][hapmap]
rs10992447	0.84[CEU][hapmap]
rs10992448	0.84[CEU][hapmap];0.87[AMR][1000 genomes]
rs10992453	0.86[CEU][hapmap];0.85[AMR][1000 genomes]
rs10992460	0.84[CEU][hapmap];0.82[AMR][1000 genomes]
rs10992461	0.84[CEU][hapmap];0.82[AMR][1000 genomes]
rs1117670	0.91[CEU][hapmap];0.88[CHB][hapmap];0.82[JPT][hapmap];0.82[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs11533010	0.92[AMR][1000 genomes]
rs11535540	0.81[AMR][1000 genomes]
rs12236013	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12236754	0.84[CEU][hapmap];0.87[AMR][1000 genomes]
rs12238691	0.86[CEU][hapmap];0.92[AMR][1000 genomes]
rs12684587	0.85[AMR][1000 genomes]
rs12685080	0.88[CHB][hapmap]
rs12685257	0.80[CHB][hapmap]
rs12685358	0.92[AMR][1000 genomes]
rs12685780	0.80[CHB][hapmap]
rs12686771	0.84[CEU][hapmap]
rs12686780	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12686781	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1323523	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1326775	1.00[CEU][hapmap];0.88[CHB][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1552908	0.87[CHB][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs1575460	1.00[CEU][hapmap];0.89[CHB][hapmap];0.83[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17366488	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1853468	1.00[CEU][hapmap];0.88[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1874128	0.87[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs1980705	0.87[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs2031262	1.00[YRI][hapmap]
rs2038685	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2088054	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2088055	0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2131919	0.91[CEU][hapmap];0.82[CHB][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2146848	1.00[CEU][hapmap]
rs2148537	1.00[CEU][hapmap];0.88[CHB][hapmap];0.82[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2172716	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2181584	0.86[CEU][hapmap];0.92[AMR][1000 genomes]
rs2274413	0.88[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs2281888	0.87[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs2296080	0.80[CHB][hapmap]
rs230222	1.00[YRI][hapmap]
rs3203916	0.80[CHB][hapmap]
rs331380	1.00[YRI][hapmap]
rs3739605	0.84[CEU][hapmap];0.92[AMR][1000 genomes]
rs556	0.80[CHB][hapmap]
rs56311406	0.82[AMR][1000 genomes]
rs57737182	0.82[AMR][1000 genomes]
rs58952648	0.92[AMR][1000 genomes]
rs60498616	0.92[AMR][1000 genomes]
rs6479426	0.91[CEU][hapmap];0.88[CHB][hapmap];0.82[JPT][hapmap];0.82[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs67601697	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7031163	0.84[CEU][hapmap];0.85[AMR][1000 genomes]
rs753804	0.92[AMR][1000 genomes]
rs754600	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7853617	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7856147	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7857105	1.00[CEU][hapmap];0.81[CHB][hapmap];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7857502	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7860628	0.82[AMR][1000 genomes]
rs7862106	0.81[AMR][1000 genomes]
rs7863741	0.80[AMR][1000 genomes]
rs7863882	0.91[CEU][hapmap];0.88[CHB][hapmap];0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7863890	0.81[CHB][hapmap]
rs7864889	0.80[CHB][hapmap]
rs7869603	0.92[AMR][1000 genomes]
rs7875050	1.00[CEU][hapmap];0.82[CHB][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs879812	0.81[CHB][hapmap]
rs912261	0.81[CHB][hapmap]
rs971984	1.00[CEU][hapmap];0.88[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs912264	CENPP	cis	multi-tissue	Pritchard

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95362800-95373000	Weak transcription	HMEC	breast
2	chr9:95363000-95371400	Weak transcription	Right Ventricle	heart
3	chr9:95363200-95371600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr9:95363400-95374000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr9:95363400-95396000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr9:95364000-95370400	Weak transcription	Ovary	ovary
7	chr9:95364000-95372800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr9:95364400-95372800	Weak transcription	NHEK	skin
9	chr9:95364800-95370400	Weak transcription	Gastric	stomach
10	chr9:95366200-95373000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr9:95366400-95370800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr9:95366400-95371400	Weak transcription	Esophagus	oesophagus
13	chr9:95366400-95375000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr9:95366600-95373600	Weak transcription	Thymus	Thymus
15	chr9:95367400-95373800	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr9:95367400-95380600	Weak transcription	Primary hematopoietic stem cells	blood
17	chr9:95368600-95371600	Enhancers	Osteobl	bone
18	chr9:95368600-95371800	Enhancers	Fetal Kidney	kidney
19	chr9:95368600-95372000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr9:95368600-95372000	Enhancers	Colon Smooth Muscle	Colon
21	chr9:95368800-95371400	Enhancers	Stomach Smooth Muscle	stomach
22	chr9:95369000-95372800	Enhancers	Fetal Muscle Leg	muscle
23	chr9:95369000-95373200	Weak transcription	Primary neutrophils fromperipheralblood	blood
24	chr9:95369200-95372000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr9:95369200-95372200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr9:95369400-95371200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr9:95369400-95371400	Enhancers	NHLF	lung
28	chr9:95369400-95372000	Enhancers	Brain Hippocampus Middle	brain
29	chr9:95369400-95372000	Enhancers	Rectal Smooth Muscle	rectum
30	chr9:95369400-95372600	Enhancers	Fetal Stomach	stomach
31	chr9:95369400-95372800	Enhancers	Adipose Nuclei	Adipose
32	chr9:95369400-95373800	Enhancers	NHDF-Ad	bronchial
33	chr9:95369600-95370800	Enhancers	HSMM	muscle
34	chr9:95369600-95371400	Enhancers	Skeletal Muscle Male	skeletal muscle
35	chr9:95369600-95371600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
36	chr9:95369600-95371800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr9:95369600-95371800	Enhancers	Brain Angular Gyrus	brain
38	chr9:95369600-95372000	Enhancers	Brain Anterior Caudate	brain
39	chr9:95369600-95372400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
40	chr9:95369600-95373000	Weak transcription	Small Intestine	intestine
41	chr9:95369600-95373200	Enhancers	Skeletal Muscle Female	skeletal muscle
42	chr9:95369800-95370400	Weak transcription	Psoas Muscle	Psoas
43	chr9:95369800-95371000	Enhancers	Pancreatic Islets	Pancreatic Islet
44	chr9:95369800-95371200	Enhancers	NH-A	brain
45	chr9:95369800-95372000	Enhancers	Duodenum Smooth Muscle	Duodenum
46	chr9:95369800-95374200	Weak transcription	Liver	Liver
47	chr9:95369800-95374200	Weak transcription	GM12878-XiMat	blood
48	chr9:95370000-95370600	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr9:95370000-95371000	Enhancers	HepG2	liver
50	chr9:95370000-95371800	Enhancers	Aorta	Aorta

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