HTPSELEX--a database of high-throughput SELEX libraries for transcription factor binding sites.

Détails

ID Serval
serval:BIB_760E10DA7CE2
Type
Article: article d'un périodique ou d'un magazine.
Collection
Publications
Titre
HTPSELEX--a database of high-throughput SELEX libraries for transcription factor binding sites.
Périodique
Nucleic Acids Research
Auteur(s)
Jagannathan V., Roulet E., Delorenzi M., Bucher P.
ISSN
1362-4962[electronic]
Statut éditorial
Publié
Date de publication
2006
Volume
34
Numéro
Database issue
Pages
D90-D94
Langue
anglais
Notes
Publication types: Journal Article ; Research Support, Non-U.S. Gov't - Publication Status: ppublish
Résumé
HTPSELEX is a public database providing access to primary and derived data from high-throughput SELEX experiments aimed at characterizing the binding specificity of transcription factors. The resource is primarily intended to serve computational biologists interested in building models of transcription factor binding sites from large sets of binding sequences. The guiding principle is to make available all information that is relevant for this purpose. For each experiment, we try to provide accurate information about the protein material used, details of the wet lab protocol, an archive of sequencing trace files, assembled clone sequences (concatemers) and complete sets of in vitro selected protein-binding tags. In addition, we offer in-house derived binding sites models. HTPSELEX also offers reasonably large SELEX libraries obtained with conventional low-throughput protocols. The FTP site contains the trace archives and database flatfiles. The web server offers user-friendly interfaces for viewing individual entries and quality-controlled download of SELEX sequence libraries according to a user-defined sequencing quality threshold. HTPSELEX is available from ftp://ftp.isrec.isb-sib.ch/pub/databases/htpselex/ and http://www.isrec.isb-sib.ch/htpselex.
Mots-clé
Binding Sites, Computational Biology, DNA/chemistry, DNA/metabolism, Databases, Nucleic Acid, Internet, Regulatory Sequences, Nucleic Acid, SELEX Aptamer Technique, Sequence Analysis, DNA, Transcription Factors/metabolism, User-Computer Interface
Pubmed
Web of science
Open Access
Oui
Création de la notice
13/03/2008 11:32
Dernière modification de la notice
08/05/2019 20:32
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