PlantCARE is a database of plant cis-acting regulatory elements, enhancers and repressors. Regulatory elements are represented by positional matrices, consensus sequences and individual sites on particular promoter sequences. Links to the EMBL, TRANSFAC and MEDLINE databases are provided when available. Data about the transcription sites are extracted mainly from the literature, supplemented with an increasing number of in silico predicted data. Apart from a general description for specific transcription factor sites, levels of confidence for the experimental evidence, functional information and the position on the promoter are given as well. New features have been implemented to search for plant cis-acting regulatory elements in a query sequence. Furthermore, links are now provided to a new clustering and motif search method to investigate clusters of co-expressed genes. New regulatory elements can be sent automatically and will be added to the database after curation.
Rombauts, S., Lescot, M., Thijs, G., Marchal, K., Moreau, Y., Déhais, P., Van de Peer, Y., et al. (2002). The PlantCARE database and tools for in silico search of plant cis-acting regulatory elements. JOBIM 2002 : journées ouvertes biologie, informatique, mathématique (pp. 183–184). Presented at the Journées Ouvertes Biologie, Informatique, Mathématique 2002 (JOBIM 2002).
Lescot, M., Déhais, P., Thijs, G., Marchal, K., Moreau, Y., Van de Peer, Y., Rouzé, P., et al. (2002). PlantCARE, a database of plant cis-acting regulatory elements and a portal to tools for in silico analysis of promoter sequences. NUCLEIC ACIDS RESEARCH, 30(1), 325–327