Variant report

Variant	rs2153155
Chromosome Location	chr4:26357893-26357894
allele	C/T
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	POLR2A	chr4:26357612-26357944	HepG2	liver:	n/a	n/a
2	POLR2A	chr4:26357758-26357983	H1-hESC	embryonic stem cell:	n/a	n/a
3	POLR2A	chr4:26357618-26358136	PFSK-1	brain:	n/a	n/a
4	POLR2A	chr4:26357813-26358034	H1-hESC	embryonic stem cell:	n/a	n/a
5	POLR2A	chr4:26357891-26358228	GM12878	blood:	n/a	n/a
6	POLR2A	chr4:26357751-26357998	H1-hESC	embryonic stem cell:	n/a	n/a
7	MAX	chr4:26357696-26358092	NB4	blood:	n/a	n/a
8	POLR2A	chr4:26357187-26358028	PFSK-1	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:26353073..26355548-chr4:26356822..26359791,2	K562	blood:

Variant related genes	Relation type
RBPJ	TF binding region

Extended variants
information (count: 11 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10939110	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2270225	0.92[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2725308	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2788864	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];0.93[JPT][hapmap];0.81[MEX][hapmap];0.95[TSI][hapmap];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3109828	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3109836	0.85[ASW][hapmap];0.81[JPT][hapmap];0.91[LWK][hapmap];0.97[MKK][hapmap];1.00[YRI][hapmap]
rs3109841	0.92[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3109844	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4618302	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6853254	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6853954	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2153155	PI4K2B	cis	cerebellum	SCAN
rs2153155	PPARGC1A	cis	parietal	SCAN

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:26323800-26374400	Weak transcription	Lung	lung
2	chr4:26325000-26374200	Weak transcription	Fetal Intestine Large	intestine
3	chr4:26344200-26370800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr4:26344200-26374200	Weak transcription	Placenta	Placenta
5	chr4:26344800-26368000	Weak transcription	Fetal Intestine Small	intestine
6	chr4:26345200-26362600	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr4:26347800-26362600	Weak transcription	Fetal Lung	lung
8	chr4:26348000-26362600	Weak transcription	Fetal Brain Male	brain
9	chr4:26348000-26374400	Weak transcription	Fetal Stomach	stomach
10	chr4:26348200-26360400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr4:26349400-26362000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr4:26351000-26361200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr4:26351000-26362400	Weak transcription	Right Ventricle	heart
14	chr4:26351000-26374200	Weak transcription	Right Atrium	heart
15	chr4:26353400-26361000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr4:26354200-26359000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr4:26356000-26358800	Enhancers	Brain Cingulate Gyrus	brain
18	chr4:26356000-26359000	Enhancers	Primary T helper cells fromperipheralblood	blood
19	chr4:26356000-26360200	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr4:26356000-26360600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
21	chr4:26356200-26358000	Enhancers	HUES48 Cell Line	embryonic stem cell
22	chr4:26356200-26358000	Enhancers	Primary T cells fromperipheralblood	blood
23	chr4:26356200-26358000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr4:26356200-26358200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
25	chr4:26356200-26358400	Enhancers	Primary T killer memory cells from peripheral blood	blood
26	chr4:26356200-26358600	Genic enhancers	NHDF-Ad	bronchial
27	chr4:26356200-26359000	Enhancers	Primary monocytes fromperipheralblood	blood
28	chr4:26356200-26359000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
29	chr4:26356200-26359000	Enhancers	Brain Substantia Nigra	brain
30	chr4:26356200-26359600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
31	chr4:26356400-26358800	Enhancers	Primary T helper cells PMA-I stimulated	--
32	chr4:26356400-26361000	Weak transcription	Ovary	ovary
33	chr4:26356400-26364800	Weak transcription	Esophagus	oesophagus
34	chr4:26356600-26358000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
35	chr4:26356600-26358400	Enhancers	Primary B cells from cord blood	blood
36	chr4:26356800-26358000	Enhancers	Psoas Muscle	Psoas
37	chr4:26356800-26358400	Enhancers	Brain Hippocampus Middle	brain
38	chr4:26356800-26358800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
39	chr4:26357000-26358000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr4:26357000-26358000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
41	chr4:26357000-26358000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
42	chr4:26357000-26358000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr4:26357000-26358000	Enhancers	Colon Smooth Muscle	Colon
44	chr4:26357000-26358000	Enhancers	Spleen	Spleen
45	chr4:26357000-26358000	Enhancers	GM12878-XiMat	blood
46	chr4:26357000-26358000	Enhancers	NHEK	skin
47	chr4:26357000-26358200	Enhancers	HUES6 Cell Line	embryonic stem cell
48	chr4:26357000-26358200	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
49	chr4:26357000-26358800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr4:26357200-26358000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

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