Nucleic Acids Res. 1999 Jan 1;27(1):307-9.

The Eukaryotic Promoter Database (EPD): recent developments.

Périer RC, Junier T, Bonnard C, Bucher P.

Source

Swiss Institute of Bioinformatics & Swiss Institute for Experimental Cancer Research, Ch. des Boveresses 155, 1066-Epalinges s/Lausanne, Switzerland.

Abstract

The Eukaryotic Promoter Database (EPD) is an annotated non-redundant collection of eukaryotic POL II promoters, for which the transcription start site has been determined experimentally. Access to promoter sequences is provided by pointers to positions in nucleotide sequence entries. The annotation part of an entry includes description of the initiation site mapping data, cross-references to other databases, and bibliographic references. EPD is structured in a way that facilitates dynamic extraction of biologically meaningful promoter subsets for comparative sequence analysis. Recent efforts have focused on exhaustive cross-referencing to the EMBL nucleotide sequence database, and on the improvement of the WWW-based user interfaces and data retrieval mechanisms. EPD can be accessed at http://www.epd.isb-sib.ch

PMID:: 9847211; [PubMed - indexed for MEDLINE]
PMCID: PMC148166

Free PMC Article

Publication Types, MeSH Terms, Substances

Publication Types

Research Support, Non-U.S. Gov't

MeSH Terms

Substances

LinkOut - more resources

Full Text Sources

Other Literature Sources

COS Scholar Universe

Libraries

LinkOut Holdings

Supplemental Content

Related citations

The eukaryotic promoter database (EPD). [Nucleic Acids Res. 2000]
The eukaryotic promoter database (EPD).
Périer RC, Praz V, Junier T, Bonnard C, Bucher P. Nucleic Acids Res. 2000 Jan 1; 28(1):302-3.
The Eukaryotic Promoter Database, EPD: new entry types and links to gene expression data. [Nucleic Acids Res. 2002]
The Eukaryotic Promoter Database, EPD: new entry types and links to gene expression data.
Praz V, Périer R, Bonnard C, Bucher P. Nucleic Acids Res. 2002 Jan 1; 30(1):322-4.
The Eukaryotic Promoter Database EPD: the impact of in silico primer extension. [Nucleic Acids Res. 2004]
The Eukaryotic Promoter Database EPD: the impact of in silico primer extension.
Schmid CD, Praz V, Delorenzi M, Périer R, Bucher P. Nucleic Acids Res. 2004 Jan 1; 32(Database issue):D82-5.
Review [Description of eukaryotic promoters in the EPD database]. [Mol Biol (Mosk). 1997]
Review [Description of eukaryotic promoters in the EPD database].
Bucher P. Mol Biol (Mosk). 1997 Jul-Aug; 31(4):616-25.
Review The EMBL Nucleotide Sequence Database. Contributing and accessing data. [Mol Biotechnol. 1999]
Review The EMBL Nucleotide Sequence Database. Contributing and accessing data.
Hingamp P, van den Broek AE, Stoesser G, Baker W. Mol Biotechnol. 1999 Oct; 12(3):255-67.

See reviews... See all...

Cited by 14 PubMed Central articles

Genome-wide analysis of core promoter elements from conserved human and mouse orthologous pairs. [BMC Bioinformatics. 2006]
Genome-wide analysis of core promoter elements from conserved human and mouse orthologous pairs.
Jin VX, Singer GA, Agosto-Pérez FJ, Liyanarachchi S, Davuluri RV. BMC Bioinformatics. 2006 Mar 7; 7:114. Epub 2006 Mar 7.
EPD in its twentieth year: towards complete promoter coverage of selected model organisms. [Nucleic Acids Res. 2006]
EPD in its twentieth year: towards complete promoter coverage of selected model organisms.
Schmid CD, Perier R, Praz V, Bucher P. Nucleic Acids Res. 2006 Jan 1; 34(Database issue):D82-5.
Statistical extraction of Drosophila cis-regulatory modules using exhaustive assessment of local word frequency. [BMC Bioinformatics. 2003]
Statistical extraction of Drosophila cis-regulatory modules using exhaustive assessment of local word frequency.
Nazina AG, Papatsenko DA. BMC Bioinformatics. 2003 Dec 22; 4:65. Epub 2003 Dec 22.

See all...

Related information

Related Citations
Calculated set of PubMed citations closely related to the selected article(s) retrieved using a word weight algorithm. Related articles are displayed in ranked order from most to least relevant, with the “linked from” citation displayed first.
Substance (MeSH Keyword)
PubChem chemical substance (submitted) records that are classified under the same Medical Subject Headings (MeSH) controlled vocabulary as the current articles.
Free in PMC
Free full text articles in PMC
Cited in PMC
Full-text articles in the PubMed Central Database that cite the current articles.

Recent activity

Clear Turn Off Turn On

The Eukaryotic Promoter Database (EPD): recent developments.
The Eukaryotic Promoter Database (EPD): recent developments.
Nucleic Acids Res. 1999 Jan 1 ;27(1):307-9.

PubMed
Genetic control of cell size at cell division in yeast.
Genetic control of cell size at cell division in yeast.
Nature. 1975 Aug 14 ;256(5518):547-51.

PubMed
Transcription regulates oxolinic acid-induced DNA gyrase cleavage at specific si...
Transcription regulates oxolinic acid-induced DNA gyrase cleavage at specific sites on the E. coli chromosome.
Nucleic Acids Res. 1990 Dec 25 ;18(24):7389-96.

PubMed
The URA5 gene is necessary for histoplasma capsulatum growth during infection of...
The URA5 gene is necessary for histoplasma capsulatum growth during infection of mouse and human cells.
Infect Immun. 1999 Feb ;67(2):624-9.

PubMed
A new method of sequencing DNA.
A new method of sequencing DNA.
Anal Biochem. 1988 Nov 1 ;174(2):423-36.

PubMed

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

PubMed

Display Settings:

Send to: