Variant report

Variant	rs7875050
Chromosome Location	chr9:95399878-95399879
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:95381141..95382834-chr9:95399062..95400590,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000127080	Chromatin interaction

Extended variants
information (count: 89 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:89)

rs_ID	r²[population]
rs10491806	1.00[CEU][hapmap];0.89[CHB][hapmap];0.83[AMR][1000 genomes]
rs10820997	0.81[CEU][hapmap];0.82[JPT][hapmap];0.81[YRI][hapmap];0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10820998	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10821001	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10821003	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10821004	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10821005	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10821009	0.81[CHB][hapmap]
rs10821011	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10821014	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10992367	0.89[CEU][hapmap];0.88[CHB][hapmap];0.84[AMR][1000 genomes]
rs10992380	0.89[CEU][hapmap];0.88[CHB][hapmap];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10992382	0.90[CEU][hapmap];0.94[CHB][hapmap];0.93[YRI][hapmap];0.87[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs10992384	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10992390	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10992392	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10992394	0.92[ASN][1000 genomes]
rs10992396	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10992404	0.83[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs10992406	0.81[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.83[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs10992407	0.91[CEU][hapmap];0.94[CHB][hapmap];0.91[JPT][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10992408	0.90[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10992409	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10992412	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10992414	0.91[CEU][hapmap];0.94[CHB][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10992416	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10992417	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10992420	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10992422	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10992423	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10992437	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10992447	0.90[CEU][hapmap]
rs10992448	0.90[CEU][hapmap];0.94[CHB][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10992453	0.91[CEU][hapmap];0.89[CHB][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10992460	0.90[CEU][hapmap];0.94[CHB][hapmap];0.85[EUR][1000 genomes]
rs10992461	0.90[CEU][hapmap];0.94[CHB][hapmap];0.85[EUR][1000 genomes]
rs1117670	0.90[CEU][hapmap];0.94[CHB][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs11533010	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12236013	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12236754	0.90[CEU][hapmap];0.89[CHB][hapmap];0.82[JPT][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12237216	0.83[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs12238691	0.91[CEU][hapmap];0.89[CHB][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12684076	0.82[EUR][1000 genomes]
rs12684587	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12685080	0.83[CHB][hapmap];0.88[YRI][hapmap];0.80[AMR][1000 genomes]
rs12685358	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12686771	0.90[CEU][hapmap]
rs12686780	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12686781	1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1323523	1.00[CEU][hapmap];0.94[CHB][hapmap];0.91[JPT][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1326775	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1575460	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs16908560	0.81[CEU][hapmap]
rs17366488	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1853468	1.00[CEU][hapmap];0.94[CHB][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1874128	0.81[YRI][hapmap]
rs2038685	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2088054	0.82[AMR][1000 genomes]
rs2131919	0.89[CEU][hapmap];0.88[CHB][hapmap];0.84[AMR][1000 genomes]
rs2146848	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs2148537	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2172716	0.84[AMR][1000 genomes]
rs2181584	0.91[CEU][hapmap];0.89[CHB][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2277169	0.83[EUR][1000 genomes]
rs3739605	0.90[CEU][hapmap];0.94[CHB][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs41266683	0.82[ASN][1000 genomes]
rs56311406	0.85[EUR][1000 genomes]
rs57737182	0.85[EUR][1000 genomes]
rs58952648	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs60498616	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6479426	0.90[CEU][hapmap];0.94[CHB][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs67601697	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7031163	0.90[CEU][hapmap];0.94[CHB][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs753804	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs754600	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7853617	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7856147	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7857105	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7857502	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7860628	0.85[EUR][1000 genomes]
rs7863741	0.85[EUR][1000 genomes]
rs7863882	0.90[CEU][hapmap];0.94[CHB][hapmap];0.93[YRI][hapmap];0.87[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs7863890	0.82[JPT][hapmap]
rs7864889	0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs7869603	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs879812	0.82[JPT][hapmap]
rs912261	0.81[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.80[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs912264	1.00[CEU][hapmap];0.82[CHB][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs971984	1.00[CEU][hapmap];0.94[CHB][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7875050	CENPP	cis	multi-tissue	Pritchard

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95371800-95407400	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr9:95373000-95421200	Strong transcription	Monocytes-CD14+_RO01746	blood
3	chr9:95375200-95405000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr9:95375400-95403000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr9:95378200-95403600	Weak transcription	Fetal Brain Male	brain
6	chr9:95380800-95400600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr9:95380800-95429000	Weak transcription	Stomach Mucosa	stomach
8	chr9:95381400-95402800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr9:95384800-95421600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr9:95385800-95401800	Strong transcription	Osteobl	bone
11	chr9:95390200-95411200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr9:95391800-95410600	Strong transcription	Left Ventricle	heart
13	chr9:95391800-95421000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
14	chr9:95392000-95407200	Strong transcription	NHLF	lung
15	chr9:95392000-95414600	Strong transcription	Duodenum Mucosa	Duodenum
16	chr9:95392000-95419600	Strong transcription	Primary T cells from cord blood	blood
17	chr9:95392200-95407600	Strong transcription	Primary B cells from peripheral blood	blood
18	chr9:95392200-95410800	Strong transcription	Brain Anterior Caudate	brain
19	chr9:95392400-95420800	Strong transcription	Primary neutrophils fromperipheralblood	blood
20	chr9:95392600-95403200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr9:95392600-95407800	Strong transcription	Brain Germinal Matrix	brain
22	chr9:95393200-95403400	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr9:95393200-95405600	Strong transcription	Fetal Intestine Small	intestine
24	chr9:95393200-95407600	Strong transcription	Lung	lung
25	chr9:95393200-95408400	Strong transcription	Fetal Intestine Large	intestine
26	chr9:95393200-95412000	Strong transcription	Right Ventricle	heart
27	chr9:95393200-95421200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
28	chr9:95393200-95421600	Strong transcription	Primary T helper cells fromperipheralblood	blood
29	chr9:95393600-95405400	Strong transcription	Esophagus	oesophagus
30	chr9:95393600-95407200	Strong transcription	Cortex derived primary cultured neurospheres	brain
31	chr9:95393600-95407600	Strong transcription	HUES6 Cell Line	embryonic stem cell
32	chr9:95393600-95407600	Strong transcription	Spleen	Spleen
33	chr9:95393600-95408400	Strong transcription	Primary B cells from cord blood	blood
34	chr9:95393600-95421000	Strong transcription	Primary monocytes fromperipheralblood	blood
35	chr9:95393800-95400200	Strong transcription	Muscle Satellite Cultured Cells	--
36	chr9:95393800-95401200	Strong transcription	Pancreas	Pancrea
37	chr9:95393800-95401200	Strong transcription	Hela-S3	cervix
38	chr9:95393800-95405600	Strong transcription	Gastric	stomach
39	chr9:95393800-95407200	Strong transcription	Brain Cingulate Gyrus	brain
40	chr9:95393800-95407400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr9:95393800-95407600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr9:95393800-95408200	Strong transcription	Primary T helper cells PMA-I stimulated	--
43	chr9:95393800-95408400	Strong transcription	Thymus	Thymus
44	chr9:95393800-95412800	Strong transcription	Placenta	Placenta
45	chr9:95393800-95413400	Strong transcription	Dnd41	blood
46	chr9:95393800-95414000	Strong transcription	Fetal Thymus	thymus
47	chr9:95393800-95414000	Strong transcription	Rectal Mucosa Donor 29	rectum
48	chr9:95393800-95414400	Strong transcription	Primary T cells fromperipheralblood	blood
49	chr9:95393800-95419200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr9:95393800-95421000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood

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