Virtual Footprint and PRODORIC: an integrative framework for regulon prediction in prokaryotes
| Autor: | Johannes Klein, Karsten Hiller, Dieter Jahn, Maurice Scheer, Max Schobert, Richard Münch, Andreas Grote |
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| Rok vydání: | 2005 |
| Předmět: |
Statistics and Probability
Systems biology Information Storage and Retrieval Context (language use) Genome browser Regulatory Sequences Nucleic Acid Biology Response Elements computer.software_genre Sensitivity and Specificity Biochemistry Genome Field (computer science) User-Computer Interface Bacterial Proteins Databases Genetic Humans Pattern matching Databases Protein Promoter Regions Genetic Molecular Biology Binding Sites Base Sequence Genome Human Computational Biology Genomics Computer Science Applications Visualization Computational Mathematics Regulon Computational Theory and Mathematics Genes Bacterial Data mining computer Algorithms Software Transcription Factors |
| Zdroj: | Bioinformatics. 21:4187-4189 |
| ISSN: | 1460-2059 1367-4803 |
| DOI: | 10.1093/bioinformatics/bti635 |
| Popis: | Summary: A new online framework for the accurate and integrative prediction of transcription factor binding sites (TFBSs) in prokaryotes was developed. The system consists of three interconnected modules: (1) The PRODORIC database as a comprehensive data source and extensive collection of TFBSs with corresponding position weight matrices. (2) The pattern matching tool Virtual Footprint for the prediction of genome based regulons and for the analysis of individual promoter regions. (3) The interactive genome browser GBPro for the visualization of TFBS search results in their genomic context and links to gene and regulator-specific information in PRODORIC. The aim of this service is to provide researchers a free and easy to use collection of interconnected tools in the field of molecular microbiology, infection and systems biology. Availability: http://www.prodoric.de/vfp Contact: [email protected] |
| Databáze: | OpenAIRE |
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