Affiliations: GBF German Research Centre for Biotechnology,
Mascheroder Weg 1, D-38124 Braunschweig, Germany, E-mail: [email protected] | BIOBASE GmbH, Halchtersche Str. 33, D-38304
Wolfenb¨ttel, Germany | Permanent address: Institute of Cytology and Genetics
SB RAN, Lavrentyev pr., 10, 630090, Novosibirsk, Russia
Note:  Corresponding author
Abstract: Bacterial infections trigger a wide range of host cell responses.
For the interaction of Pseudomonas aeruginosa and epithelial cells it is known
that transcription factor NF-κB plays a central role, but its
effects have to be specified by cooperation with additional factors.
NF-κB containing composite elements, e.g. with C/EBP, may be
appropriate indicators for new antibacterial response genes. We refined
matrix-based search methods for C/EBP, which was necessary because of weak
consensi of the previosly existing C/EBP matrices, established a model for
C/EBP / NF-κB composite element, used it for scanning all known
human 5'-flanking sequences and identified 135 new candidate genes. The newly
constructed C/EBP binding patterns will be available with one of the next
releases of the TRANSFAC database (http://www.gene-regulation.de).