RSAT -- Regulatory Sequence Analysis Tools
What you can do:
Detect regulatory elements in non-coding sequences.
Highlights:
- The regulatory sequence analysis tools is a software suite that integrates a wide collection of modular tools for the detection of cis-regulatory elements in genome sequences.
- The suite includes programs for sequence retrieval, pattern discovery, phylogenetic footprint detection, pattern matching, genome scanning and feature map drawing.
- Random controls can be performed with random gene selections or by generating random sequences according to a variety of background models (Bernoulli, Markov).
- Beyond the original word-based pattern-discovery tools (oligo-analysis and dyad-analysis), we recently added a battery of tools for matrix-based detection of cis-acting elements, with some original features (adaptive background models, Markov-chain estimation of P-values) that do not exist in other matrix-based scanning tools.
- The web server offers an intuitive interface, where each program can be accessed either separately or connected to the other tools.
- In addition, the tools are now available as web services, enabling their integration in programmatic workflows.
- Genomes are regularly updated from various genome repositories (NCBI and EnsEMBL) and 682 organisms are currently supported.
- Since 1998, the tools have been used by several hundreds of researchers from all over the world.
Keywords:
- transcription factor binding site analysis tool
- DNA-binding sites prediction tool
- promoter analysis tool
- transcription starting site prediction tool
- transcription factor binding sites
- transcription factor binding site visualization tool
- transcription factors
- cis-elements
- cis-elements prediction tool
- regulatory element prediction tool
- promoter element prediction tool
- DNA sequence analysis tool
- genomic sequence analysis tool
- comparative genomics tool
- sequence alignment tool
- multiple sequence alignment tool
- DNA sequence alignment tool
Literature & Tutorials:
This record last updated: 07-21-2008