Variant report

Variant	rs10828316
Chromosome Location	chr10:22838389-22838390
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:22836119..22838816-chr10:22841723..22844142,3	K562	blood:
2	chr10:22745153..22747166-chr10:22836379..22838583,2	MCF-7	breast:
3	chr10:22604455..22607318-chr10:22837295..22839018,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000269897	Chromatin interaction
ENSG00000148444	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10047326	0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.90[JPT][hapmap];0.97[ASN][1000 genomes]
rs10159730	0.81[ASN][1000 genomes]
rs10430590	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1053454	0.96[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap]
rs10741006	0.85[CEU][hapmap]
rs10828314	0.92[CEU][hapmap]
rs10828315	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10828317	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs11013045	0.96[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap]
rs11013046	0.96[CEU][hapmap]
rs11013048	0.81[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs11013051	0.89[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs12146350	0.92[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs12241748	0.85[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.83[ASN][1000 genomes]
rs2296624	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28666940	0.89[ASN][1000 genomes]
rs35549346	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3793752	0.88[ASN][1000 genomes]
rs4532931	0.88[CEU][hapmap]
rs4747442	0.96[CEU][hapmap]
rs4747443	0.85[CHB][hapmap];0.94[JPT][hapmap];0.82[ASN][1000 genomes]
rs4748810	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs4748811	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs4748812	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs4748813	0.84[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.84[ASN][1000 genomes]
rs4748814	0.85[CEU][hapmap]
rs7075634	0.85[CEU][hapmap];0.91[CHB][hapmap];0.81[CHD][hapmap];1.00[JPT][hapmap]
rs7081744	0.84[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.85[ASN][1000 genomes]
rs7082618	0.94[ASN][1000 genomes]
rs7088318	0.85[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs7094131	0.81[CEU][hapmap]
rs7097972	0.84[CEU][hapmap]
rs746203	0.92[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs7901152	0.92[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs8341	0.92[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap]
rs943189	0.96[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs943190	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs9783154	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9787624	0.80[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10828316	PIP5K2A	cis	multi-tissue	Pritchard

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:22822200-22856000	Weak transcription	Small Intestine	intestine
2	chr10:22822800-22870200	Strong transcription	Monocytes-CD14+_RO01746	blood
3	chr10:22823000-22844600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr10:22823400-22845200	Strong transcription	Primary monocytes fromperipheralblood	blood
5	chr10:22823600-22842200	Weak transcription	Colon Smooth Muscle	Colon
6	chr10:22823800-22845200	Strong transcription	Primary T helper cells PMA-I stimulated	--
7	chr10:22824000-22844400	Strong transcription	Primary B cells from cord blood	blood
8	chr10:22824000-22844800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr10:22824000-22853000	Strong transcription	Primary T helper cells fromperipheralblood	blood
10	chr10:22824200-22839000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr10:22824200-22840000	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
12	chr10:22824400-22845400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr10:22824800-22840800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr10:22825000-22840200	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr10:22825000-22840600	Strong transcription	Primary neutrophils fromperipheralblood	blood
16	chr10:22825000-22852800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr10:22825000-22863800	Weak transcription	Hela-S3	cervix
18	chr10:22825200-22840000	Strong transcription	Fetal Stomach	stomach
19	chr10:22825600-22843800	Weak transcription	Stomach Mucosa	stomach
20	chr10:22825600-22888000	Weak transcription	HMEC	breast
21	chr10:22825800-22843600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr10:22826000-22843400	Weak transcription	Fetal Brain Female	brain
23	chr10:22826200-22843600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
24	chr10:22826600-22843400	Weak transcription	Colonic Mucosa	Colon
25	chr10:22827000-22842200	Weak transcription	Right Atrium	heart
26	chr10:22828800-22840200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
27	chr10:22828800-22841400	Weak transcription	HSMM	muscle
28	chr10:22829000-22887400	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr10:22830200-22839200	Strong transcription	Brain Substantia Nigra	brain
30	chr10:22830600-22840400	Weak transcription	Fetal Brain Male	brain
31	chr10:22830600-22841200	Weak transcription	Fetal Lung	lung
32	chr10:22830600-22842400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr10:22830600-22853000	Weak transcription	HUVEC	blood vessel
34	chr10:22830800-22839600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
35	chr10:22830800-22861000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
36	chr10:22831000-22839000	Weak transcription	Muscle Satellite Cultured Cells	--
37	chr10:22831200-22842800	Weak transcription	Ovary	ovary
38	chr10:22831200-22843200	Weak transcription	NHLF	lung
39	chr10:22831200-22843600	Weak transcription	Esophagus	oesophagus
40	chr10:22831200-22856400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr10:22831400-22839600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
42	chr10:22831600-22842800	Weak transcription	Rectal Smooth Muscle	rectum
43	chr10:22831800-22852600	Weak transcription	A549	lung
44	chr10:22832200-22843600	Weak transcription	Pancreas	Pancrea
45	chr10:22833000-22842000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr10:22833800-22842000	Weak transcription	Gastric	stomach
47	chr10:22834000-22840800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr10:22834000-22840800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr10:22834000-22841600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr10:22834000-22843400	Weak transcription	Psoas Muscle	Psoas

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