factors and their rodent orthologs

TFClass aims at classifying eukaryotic transcription factors (TFs) according to their DNA-binding do-mains (DBDs). For this, a classification schema com-prising four generic levels (superclass, class, fam-ily and subfamily) was defined that could accom-modate all known DNA-binding human TFs. They were assigned to their (sub-)families as instances at two different levels, the corresponding TF genes and individual gene products (protein isoforms). In the present version, all mouse and rat orthologs have been linked to the human TFs, and the mouse or-thologs have been arranged in an independent on-tology. Many TFs were assigned with typical DNA-binding patterns and positional weight matrices de-rived from high-throughput in-vitro binding studies. Predicted TF binding sites from human gene up-stream sequences are now also attached to each human TF whenever a PWM was available for this factor or one of his paralogs. TFClass is freely available a