Composite Module Analyst -- identification of transcription factor binding site combinations using genetic algorithm
What you can do:
Identify promoter-enhancer models based on the composition of transcription factor (TF) binding sites and their pairs.
Highlights:
- Composite Module Analyst (CMA) is a novel software tool aiming to identify promoter-enhancer models based on the composition of transcription factor (TF) binding sites and their pairs.
- Interconnected with the TRANSFAC database, CMA uses the positional weight matrix (PWM) library collected in TRANSFAC and therefore provides the possibility to search for a large variety of different TF binding sites.
- With an input a set of co-regulated genes, CMA builds the promoter model and optimizes the parameters of the model automatically by applying a genetic-regression algorithm.
- An advanced version of CMA is also a part of the commercial system ExPlaintrade mark (www.biobase.de) designed for causal analysis of gene expression data.
Keywords:
- transcription factor binding site prediction tool
- cis-regulatory elements prediction tool
- gene regulatory element identification tool
- promoter analysis
- co-regulated genes
- co-expressed genes
Literature & Tutorials:
This record last updated: 08-02-2006