دورية أكاديمية
LogoMotif: A Comprehensive Database of Transcription Factor Binding Site Profiles in Actinobacteria.
| العنوان: | LogoMotif: A Comprehensive Database of Transcription Factor Binding Site Profiles in Actinobacteria. |
|---|---|
| المؤلفون: | Augustijn HE; Bioinformatics Group, Wageningen University, Wageningen, The Netherlands; Molecular Biotechnology, Institute of Biology, Leiden University, Leiden, The Netherlands., Karapliafis D; Bioinformatics Group, Wageningen University, Wageningen, The Netherlands., Joosten KMM; Bioinformatics Group, Wageningen University, Wageningen, The Netherlands., Rigali S; InBioS - Center for Protein Engineering, University of Liège, Institut de Chimie, B-4000 Liège, Belgium., van Wezel GP; Molecular Biotechnology, Institute of Biology, Leiden University, Leiden, The Netherlands. Electronic address: g.wezel@biology.leidenuniv.nl., Medema MH; Bioinformatics Group, Wageningen University, Wageningen, The Netherlands; Molecular Biotechnology, Institute of Biology, Leiden University, Leiden, The Netherlands. Electronic address: marnix.medema@wur.nl. |
| المصدر: | Journal of molecular biology [J Mol Biol] 2024 Apr 03, pp. 168558. Date of Electronic Publication: 2024 Apr 03. |
| Publication Model: | Ahead of Print |
| نوع المنشور: | Journal Article |
| اللغة: | English |
| بيانات الدورية: | Publisher: Elsevier Country of Publication: Netherlands NLM ID: 2985088R Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1089-8638 (Electronic) Linking ISSN: 00222836 NLM ISO Abbreviation: J Mol Biol Subsets: MEDLINE |
| أسماء مطبوعة: | Publication: Amsterdam : Elsevier Original Publication: 1959- : London : Academic Press |
| مستخلص: | Actinobacteria undergo a complex multicellular life cycle and produce a wide range of specialized metabolites, including the majority of the antibiotics. These biological processes are controlled by intricate regulatory pathways, and to better understand how they are controlled we need to augment our insights into the transcription factor binding sites. Here, we present LogoMotif (https://logomotif.bioinformatics.nl), an open-source database for characterized and predicted transcription factor binding sites in Actinobacteria, along with their cognate position weight matrices and hidden Markov models. Genome-wide predictions of binding site locations in Streptomyces model organisms are supplied and visualized in interactive regulatory networks. In the web interface, users can freely access, download and investigate the underlying data. With this curated collection of actinobacterial regulatory interactions, LogoMotif serves as a basis for binding site predictions, thus providing users with clues on how to elicit the expression of genes of interest and guide genome mining efforts. Competing Interests: Declaration of competing interest The authors declare the following financial interests/personal relationships which may be considered as potential competing interests: M.H.M. is a member of the Scientific Advisory Board of Hexagon Bio. (Copyright © 2024 The Author(s). Published by Elsevier Ltd.. All rights reserved.) |
| فهرسة مساهمة: | Keywords: actinobacteria; biosynthetic gene clusters; gene expression; regulators; regulatory network |
| تواريخ الأحداث: | Date Created: 20240405 Latest Revision: 20240413 |
| رمز التحديث: | 20240414 |
| DOI: | 10.1016/j.jmb.2024.168558 |
| PMID: | 38580076 |
| قاعدة البيانات: | MEDLINE |
Full Text Finder كن أول من يترك تعليقا!