Composite Module Analyst (CMA)

Defining promoter models based on the composition of transcription factor binding sites and their pairs.


Composite modules (CM) - combinations of binding sites common for promoters of functionally related genes and responsible for the major component of the gene expression pattern of these genes.













Authors: A. Kel1,*, T. Konovalova2, T.Waleev3, E.Cheremushkin3, O. Kel-Margoulis1, E.Wingender1,4

1 BIOBASE GmbH, Halchtersche Str. 33, D-38304 Wolfenb�ttel, Germany;
Institute of Cytology and Genetics, Novosibirsk, Russia ;
3 A.P. Ershov's Institute of Informatics Systems, 6, Lavrentiev ave., 630090 Novosibirsk, Russia;
4 Dept. Bioinformatics, UKG/Univ. G�ttingen, Goldschmidstr. 1, 37077 G�ttignen, Germany



Authors would like to thank all co-workers of the BIOBASE GmbH who have been contributing to the integration of CMA into the ExPlain� system. Parts of the work were funded by grant of the German Ministry of Education and Research (BMBF) together with BioRegioN GmbH �BioProfil�, grant no. 0313092; �Intergenomics� Project, Grant No. 031U110C/031U210C; by European Commission under FP6-"Life sciences, genomics and biotechnology for health" contract LSHG-CT-2004-503568 �COMBIO�, by European Commission under �Marie Curie research training networks� contract MRTN-CT-2004-512285 �TRANSISTOR�, and by INTAS grant No:03-51-5218.

Development was sponsored by BIOBASE GmbH and coding was done with the help of BioRainbow Co.