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EPD specifications

Information


Unique identifier OMICS_01880
Name EPD
Alternative name Eukaryotic Promoter Database
Restrictions to use None
Maintained Yes
Wikipedia https://en.wikipedia.org/wiki/Eukaryotic_Promoter_Database

Maintainer


  • person_outline Philipp Bucher

Publications for Eukaryotic Promoter Database

EPD citations

 (24)
library_books

Allopregnanolone Alters the Gene Expression Profile of Human Glioblastoma Cells

2018
Int J Mol Sci
PMCID: 5877725
PMID: 29543748
DOI: 10.3390/ijms19030864

[…] , promoters and gene sequences were obtained from the NCBI database []. Then, the promoter regions and transcription start site (TSS) were determined with the Ensembl database [] and confirmed by the Eukaryotic Promoter Database (EPD) []. We searched for putative binding sites for CREB1, CEBPα and PXR using JASPAR [], UCSC Genome Browser [], Unipro UGENE v.1.26.3 software [], and TRANSFAC software […]

library_books

Targeting autophagy inhibits melanoma growth by enhancing NK cells infiltration in a CCL5 dependent manner

2017
Proc Natl Acad Sci U S A
PMCID: 5676879
PMID: 29078276
DOI: 10.1073/pnas.1703921114

[…] GA[C/G]TCA-3′) () and nonconsensus (5′-TGACTgA-3′ or 5′-TGACTCc-3′) () motifs for the Jun/Fos AP-1 binding site on the mouse CCL5 promoter. The promoter containing fragment has been defined using the Eukaryotic Promoter Database (Swiss Institute of Bioinformatics) from −8,000 to +100 bp relative to the transcription start site (TSS) of the mouse CCL5 gene (RefSeq NM_013653.3). Fuzznuc EMBOSS searc […]

library_books

Kaiso differentially regulates components of the Notch signaling pathway in intestinal cells

2017
PMCID: 5480165
PMID: 28637464
DOI: 10.1186/s12964-017-0178-x

[…] Potential transcription start sites (TSS) were obtained from the Eukaryotic Promoter Database []. DNA sequences at the indicated ranges surrounding the TSS were analyzed using the MethPrimer [] and EMBOSS Cpgplot [] programs to predict CpG islands. […]

library_books

Genotypes of SLC22A4 and SLC22A5 regulatory loci are predictive of the response of chronic myeloid leukemia patients to imatinib treatment

2017
PMCID: 5395939
PMID: 28420426
DOI: 10.1186/s13046-017-0523-3

[…] he sequences covering the promoters of the 19 genes were analyzed using The National Center for Biotechnology Information (NCBI), Pharmacogenetics of Membrane Transporters Database (UCSF PMT) and The Eukaryotic Promoter Database (EPD). We designed primers to generate amplicons with a length of 1000–1500 bp encompassing the whole promoter region, including the proximal parts, and occasionally first […]

library_books

The KDM5 family is required for activation of pro proliferative cell cycle genes during adipocyte differentiation

2016
Nucleic Acids Res
PMCID: 5389521
PMID: 27899593
DOI: 10.1093/nar/gkw1156

[…] ersity of California at Santa Cruz (UCSC) Genome Browser () was used for visualization of genome tracks. For analyses of promoter features, we retrieved 2,742 promoters containing TATA boxes from the Eukaryotic Promoter Database (EPDnew) (). We overlapped these promoter sequences with the respective gene groups and considered a gene as having a TATA box in the promoter if it was found within ±100 […]

library_books

Inactivation of Capicua drives cancer metastasis

2016
Nat Genet
PMCID: 5195898
PMID: 27869830
DOI: 10.1038/ng.3728

[…] p-value <10e−10) were identified and subsequently surveyed for the CIC binding consensus sequence (T(G/C)AATG(G/A)A) in the promoter region (−2000 ~100 relative to TSS,), sequences were download from eukaryotic promoter database (http://epd.vital-it.ch/). […]

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EPD institution(s)
Swiss Institute of Bioinformatics, Epalinges s/Lausanne, Switzerland

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