Variant report

Variant	rs4072180
Chromosome Location	chr3:133868479-133868480
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	chr3:133865086..133867280-chr3:133868186..133869693,2	MCF-7	breast:
2	chr3:133862684..133865458-chr3:133867741..133869409,2	MCF-7	breast:

Extended variants
information (count: 38 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10804630	0.84[GIH][hapmap];0.86[MEX][hapmap]
rs10935104	0.85[CEU][hapmap];0.82[EUR][1000 genomes]
rs1131262	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.96[GIH][hapmap];0.95[JPT][hapmap];0.93[MEX][hapmap];0.93[TSI][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11707763	0.80[ASN][1000 genomes]
rs11915143	0.80[ASN][1000 genomes]
rs35322473	0.81[ASN][1000 genomes]
rs3890774	0.85[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.96[GIH][hapmap];0.95[JPT][hapmap];0.80[MEX][hapmap];0.81[MKK][hapmap];0.93[TSI][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4324466	0.97[ASN][1000 genomes]
rs4682664	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.96[GIH][hapmap];0.95[JPT][hapmap];0.93[MEX][hapmap];0.81[MKK][hapmap];0.93[TSI][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4682666	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4682668	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4682669	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56073423	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6439465	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6439466	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6650893	0.81[ASN][1000 genomes]
rs6762690	0.92[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.81[MKK][hapmap];0.93[TSI][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6776502	0.85[CEU][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6780295	0.81[ASN][1000 genomes]
rs6800143	0.97[ASN][1000 genomes]
rs6808085	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7355922	0.82[ASN][1000 genomes]
rs7609611	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7622046	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9283588	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9812461	0.93[ASN][1000 genomes]
rs9818714	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.96[GIH][hapmap];0.95[JPT][hapmap];0.93[MEX][hapmap];0.93[TSI][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9823873	0.85[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9825808	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9827728	0.81[ASN][1000 genomes]
rs9832732	0.91[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9839819	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.96[GIH][hapmap];0.95[JPT][hapmap];0.93[MEX][hapmap];0.81[MKK][hapmap];0.93[TSI][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9853568	0.92[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9856298	0.92[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.96[GIH][hapmap];0.95[JPT][hapmap];0.93[MEX][hapmap];0.93[TSI][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9856792	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9858069	0.89[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9858450	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.96[GIH][hapmap];0.95[JPT][hapmap];0.93[MEX][hapmap];0.83[MKK][hapmap];0.93[TSI][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9858707	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4072180	PIK3CB	cis	parietal	SCAN

Chromatin state (count:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:133842000-133872600	Weak transcription	Skeletal Muscle Female	skeletal muscle
2	chr3:133842600-133870600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr3:133842800-133872000	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr3:133843000-133871200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr3:133843000-133872600	Weak transcription	Gastric	stomach
6	chr3:133848600-133872600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr3:133853600-133870600	Weak transcription	Duodenum Mucosa	Duodenum
8	chr3:133853600-133871000	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr3:133854400-133872400	Weak transcription	NHEK	skin
10	chr3:133855400-133871000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr3:133856400-133872600	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr3:133858000-133870800	Weak transcription	Fetal Brain Female	brain
13	chr3:133858000-133871800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
14	chr3:133859400-133871200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr3:133859400-133872600	Weak transcription	Aorta	Aorta
16	chr3:133862200-133870600	Weak transcription	Brain Anterior Caudate	brain
17	chr3:133862600-133869400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr3:133862600-133870400	Weak transcription	Dnd41	blood
19	chr3:133862600-133873600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
20	chr3:133862600-133873600	Weak transcription	Fetal Heart	heart
21	chr3:133862800-133872600	Weak transcription	NH-A	brain
22	chr3:133862800-133876800	Weak transcription	Small Intestine	intestine
23	chr3:133863000-133870400	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr3:133863000-133872400	Weak transcription	Primary T cells fromperipheralblood	blood
25	chr3:133863000-133872400	Weak transcription	Primary T helper cells PMA-I stimulated	--
26	chr3:133863000-133876800	Weak transcription	H9 Cell Line	embryonic stem cell
27	chr3:133863000-133876800	Weak transcription	Brain Angular Gyrus	brain
28	chr3:133863000-133902200	Weak transcription	GM12878-XiMat	blood
29	chr3:133863200-133868600	Weak transcription	Fetal Lung	lung
30	chr3:133863200-133870000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr3:133863200-133871200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
32	chr3:133863200-133872200	Weak transcription	HepG2	liver
33	chr3:133863200-133872800	Weak transcription	NHLF	lung
34	chr3:133863200-133877000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
35	chr3:133863200-133877400	Weak transcription	Psoas Muscle	Psoas
36	chr3:133863600-133873000	Weak transcription	Brain Germinal Matrix	brain
37	chr3:133863800-133869600	Weak transcription	HUES6 Cell Line	embryonic stem cell
38	chr3:133863800-133870000	Weak transcription	Cortex derived primary cultured neurospheres	brain
39	chr3:133863800-133871000	Weak transcription	Ovary	ovary
40	chr3:133863800-133871800	Weak transcription	Primary B cells from peripheral blood	blood
41	chr3:133863800-133872600	Weak transcription	Fetal Intestine Small	intestine
42	chr3:133864000-133871800	Weak transcription	Adipose Nuclei	Adipose
43	chr3:133864000-133873200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
44	chr3:133864000-133881000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
45	chr3:133864200-133872600	Weak transcription	Spleen	Spleen
46	chr3:133864200-133899800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
47	chr3:133864400-133870800	Weak transcription	Muscle Satellite Cultured Cells	--
48	chr3:133864600-133892400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr3:133864800-133870200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr3:133864800-133870600	Weak transcription	Liver	Liver

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