title: Prediction of cis-regulatory elements for drug-activated transcription factors in the regulation of drug-metabolising enzymes and drug transporters.
abstract: The expression of drug-metabolising enzymes is affected by many endogenous and exogenous factors, including sex, age, diet and exposure to xenobiotics and drugs. To understand fully how the organism metabolises a drug, these alterations in gene expression must be taken into account. The central process, the definition of likely regulatory elements in the genes coding for enzymes and transporters involved in drug disposition, can be vastly accelerated using existing and emerging bioinformatics methods to unravel the regulatory networks causing drug-mediated induction of genes. Here, various approaches to predict transcription factor interactions with regulatory DNA elements are reviewed.
authors.affiliation: Swiss Institute of Bioinformatics and Biozentrum, University of Basel, Klingelbergstrasse 50-70, CH-4056 Basel, Switzerland. michael.podvinec@unibas.ch
authors.forename: Michael
authors.initials: M
authors.lastname: Podvinec
authors.forename: Urs A
authors.initials: UA
authors.lastname: Meyer
mesh_terms: D000465:Algorithms; D000818:Animals; D001665:Binding Sites; D002352:Carrier Proteins / Q000235:genetics* / Q000378:metabolism; D019295:Computational Biology / Q000379:methods; D003577:Cytochrome P-450 Enzyme System / Q000235:genetics* / Q000378:metabolism; D004247:DNA / Q000235:genetics / Q000378:metabolism*; D030541:Databases, Genetic; D015971:Gene Expression Regulation, Enzymologic / Q000187:drug effects*; D006801:Humans; D008390:Markov Chains; D008957:Models, Genetic; D011401:Promoter Regions, Genetic / Q000235:genetics; D018160:Receptors, Cytoplasmic and Nuclear / Q000378:metabolism; D014157:Transcription Factors / Q000378:metabolism*; D015262:Xenobiotics / Q000378:metabolism / Q000494:pharmacology*
chemical_list: D002352:Carrier Proteins; D018160:Receptors, Cytoplasmic and Nuclear; D014157:Transcription Factors; D015262:Xenobiotics; D004247:DNA; D003577:Cytochrome P-450 Enzyme System