Variant report

Variant	rs15924
Chromosome Location	chr4:100790307-100790308
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:100789002..100791414-chr4:100798253..100799959,2	K562	blood:

Extended variants
information (count: 37 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10516459	1.00[GIH][hapmap];0.86[MEX][hapmap];0.92[TSI][hapmap];0.95[EUR][1000 genomes]
rs12431	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17539582	0.89[CEU][hapmap];1.00[GIH][hapmap];0.92[TSI][hapmap];0.95[EUR][1000 genomes]
rs17539883	0.95[EUR][1000 genomes]
rs17541426	0.95[EUR][1000 genomes]
rs17541690	0.83[EUR][1000 genomes]
rs17612178	0.83[EUR][1000 genomes]
rs17613746	1.00[GIH][hapmap];0.92[TSI][hapmap];0.90[EUR][1000 genomes]
rs41275723	0.97[EUR][1000 genomes]
rs62305039	0.83[EUR][1000 genomes]
rs62305041	0.93[EUR][1000 genomes]
rs62305044	0.83[EUR][1000 genomes]
rs62305046	0.97[EUR][1000 genomes]
rs62305049	0.85[EUR][1000 genomes]
rs62305052	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62305053	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62305055	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62305056	0.93[EUR][1000 genomes]
rs62305057	0.95[EUR][1000 genomes]
rs62305059	0.95[EUR][1000 genomes]
rs62306060	0.95[EUR][1000 genomes]
rs62306061	0.83[EUR][1000 genomes]
rs62306063	0.95[EUR][1000 genomes]
rs62306066	0.88[EUR][1000 genomes]
rs62306067	0.88[EUR][1000 genomes]
rs62306068	0.88[EUR][1000 genomes]
rs62306069	0.88[EUR][1000 genomes]
rs62306070	0.88[EUR][1000 genomes]
rs62306071	0.88[EUR][1000 genomes]
rs62306073	0.90[EUR][1000 genomes]
rs62306075	0.83[EUR][1000 genomes]
rs62306084	0.83[EUR][1000 genomes]
rs62306085	0.83[EUR][1000 genomes]
rs6828260	1.00[ASW][hapmap]
rs72913012	0.81[AFR][1000 genomes]
rs72913018	0.87[AFR][1000 genomes]
rs767652	1.00[ASW][hapmap];0.89[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];0.86[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs15924	MGMT	trans	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:100761000-100801200	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr4:100768400-100799000	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr4:100777600-100800800	Weak transcription	Thymus	Thymus
4	chr4:100777800-100799200	Weak transcription	Fetal Thymus	thymus
5	chr4:100777800-100801000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr4:100778000-100792000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr4:100778000-100798600	Weak transcription	Duodenum Mucosa	Duodenum
8	chr4:100778000-100800200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
9	chr4:100778200-100798200	Weak transcription	Placenta	Placenta
10	chr4:100778400-100800600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr4:100781200-100791800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr4:100781200-100800800	Weak transcription	Esophagus	oesophagus
13	chr4:100781200-100800800	Weak transcription	Spleen	Spleen
14	chr4:100781200-100801000	Weak transcription	Pancreas	Pancrea
15	chr4:100781400-100795800	Strong transcription	Primary B cells from cord blood	blood
16	chr4:100782600-100790800	Strong transcription	Primary T helper cells fromperipheralblood	blood
17	chr4:100782800-100792200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr4:100782800-100793400	Strong transcription	GM12878-XiMat	blood
19	chr4:100783000-100791000	Weak transcription	Sigmoid Colon	Sigmoid Colon
20	chr4:100783000-100793400	Strong transcription	Primary monocytes fromperipheralblood	blood
21	chr4:100783000-100793600	Strong transcription	Monocytes-CD14+_RO01746	blood
22	chr4:100783000-100796000	Strong transcription	Primary B cells from peripheral blood	blood
23	chr4:100783200-100793000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr4:100783400-100790600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr4:100784400-100793000	Strong transcription	Primary neutrophils fromperipheralblood	blood
26	chr4:100784800-100790400	Strong transcription	Primary hematopoietic stem cells	blood
27	chr4:100784800-100790400	Strong transcription	Primary T helper cells PMA-I stimulated	--
28	chr4:100784800-100792600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
29	chr4:100785000-100790400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr4:100785800-100790400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr4:100786400-100798000	Weak transcription	Liver	Liver
32	chr4:100787200-100790600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
33	chr4:100787400-100790800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr4:100787800-100797800	Weak transcription	Fetal Lung	lung
35	chr4:100788200-100797800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr4:100788800-100799600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr4:100789000-100790400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr4:100789000-100793200	Strong transcription	NHEK	skin
39	chr4:100789400-100790600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
40	chr4:100789600-100790400	Enhancers	ES-I3 Cell Line	embryonic stem cell
41	chr4:100789600-100799400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
42	chr4:100789600-100799600	Weak transcription	Left Ventricle	heart
43	chr4:100789600-100799600	Weak transcription	Skeletal Muscle Male	skeletal muscle
44	chr4:100789600-100799600	Weak transcription	NH-A	brain
45	chr4:100789600-100800200	Weak transcription	NHLF	lung
46	chr4:100789600-100800600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
47	chr4:100789600-100805200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
48	chr4:100789600-100814200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
49	chr4:100789800-100796000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
50	chr4:100789800-100797600	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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