Variant report

Variant	rs12620426
Chromosome Location	chr2:37379869-37379870
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:37373517..37380041-chr2:37380520..37385811,10	MCF-7	breast:

Variant related genes	Relation type
ENSG00000055332	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10187017	0.84[ASN][1000 genomes]
rs10201149	0.83[ASN][1000 genomes]
rs1060957	0.84[CEU][hapmap]
rs11894414	0.97[ASN][1000 genomes]
rs11894449	0.97[ASN][1000 genomes]
rs11899117	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11904602	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12475964	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12619587	0.86[ASN][1000 genomes]
rs12712526	0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs12992610	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12992818	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12994023	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12994644	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13008236	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13008681	0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs13020602	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13026696	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13027513	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17020213	0.81[CEU][hapmap]
rs17445820	0.83[CEU][hapmap]
rs2014498	0.86[ASN][1000 genomes]
rs2254958	0.92[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];0.94[MKK][hapmap];0.91[TSI][hapmap];0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2270414	0.89[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs2540992	0.80[CEU][hapmap]
rs3856500	0.97[CHD][hapmap];0.85[GIH][hapmap];0.92[JPT][hapmap];0.86[TSI][hapmap];0.85[ASN][1000 genomes]
rs3936292	0.97[CHD][hapmap];0.92[JPT][hapmap];0.83[ASN][1000 genomes]
rs4670662	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4670663	0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs4670664	0.89[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs4670665	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4670666	0.84[ASN][1000 genomes]
rs72790618	0.84[ASN][1000 genomes]
rs7340267	0.86[ASN][1000 genomes]
rs7575957	0.88[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7580127	0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7580323	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7580428	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs759667	0.85[ASN][1000 genomes]
rs7606786	0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12620426	CEBPZ	cis	cerebellum	SCAN

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:37312200-37383200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr2:37336400-37383200	Weak transcription	Psoas Muscle	Psoas
3	chr2:37355000-37383200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr2:37361800-37383200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr2:37363600-37382600	Weak transcription	Esophagus	oesophagus
6	chr2:37365800-37383600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr2:37371200-37383200	Weak transcription	Colonic Mucosa	Colon
8	chr2:37372200-37383200	Weak transcription	Gastric	stomach
9	chr2:37372600-37382200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr2:37372600-37383200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr2:37373800-37382000	Weak transcription	Right Ventricle	heart
12	chr2:37374000-37382600	Weak transcription	Fetal Heart	heart
13	chr2:37374400-37380800	Weak transcription	Fetal Brain Male	brain
14	chr2:37374400-37382200	Weak transcription	Small Intestine	intestine
15	chr2:37374400-37382400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr2:37374400-37382400	Weak transcription	Brain Angular Gyrus	brain
17	chr2:37374400-37382400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr2:37374400-37382400	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr2:37374400-37382600	Weak transcription	Rectal Smooth Muscle	rectum
20	chr2:37374400-37383200	Weak transcription	NH-A	brain
21	chr2:37374600-37382200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
22	chr2:37375000-37382200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr2:37375000-37382200	Weak transcription	Brain Cingulate Gyrus	brain
24	chr2:37375000-37382200	Weak transcription	Stomach Smooth Muscle	stomach
25	chr2:37375000-37382800	Weak transcription	HUES48 Cell Line	embryonic stem cell
26	chr2:37375000-37383200	Weak transcription	H9 Cell Line	embryonic stem cell
27	chr2:37375200-37382600	Weak transcription	Fetal Kidney	kidney
28	chr2:37375200-37383000	Weak transcription	Thymus	Thymus
29	chr2:37375600-37381000	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr2:37375600-37382200	Weak transcription	NHDF-Ad	bronchial
31	chr2:37375800-37380000	Weak transcription	Ovary	ovary
32	chr2:37375800-37382200	Weak transcription	Brain Anterior Caudate	brain
33	chr2:37375800-37382200	Weak transcription	Colon Smooth Muscle	Colon
34	chr2:37375800-37382200	Weak transcription	Spleen	Spleen
35	chr2:37375800-37382400	Weak transcription	Placenta Amnion	Placenta Amnion
36	chr2:37375800-37383000	Weak transcription	HSMMtube	muscle
37	chr2:37375800-37383200	Weak transcription	Lung	lung
38	chr2:37376000-37380400	Weak transcription	A549	lung
39	chr2:37376000-37382200	Weak transcription	Brain Hippocampus Middle	brain
40	chr2:37376000-37382200	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr2:37376000-37382400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
42	chr2:37376000-37382400	Weak transcription	Adipose Nuclei	Adipose
43	chr2:37376000-37382600	Weak transcription	Brain Substantia Nigra	brain
44	chr2:37376000-37382600	Weak transcription	Fetal Lung	lung
45	chr2:37376200-37380200	Weak transcription	HUES64 Cell Line	embryonic stem cell
46	chr2:37376200-37381600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
47	chr2:37376200-37381600	Weak transcription	Primary T cells fromperipheralblood	blood
48	chr2:37376200-37382200	Weak transcription	Brain Germinal Matrix	brain
49	chr2:37376200-37382200	Weak transcription	Fetal Brain Female	brain
50	chr2:37376200-37382400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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