Philip Stegmaier

TL;DR: The TRANSFAC® database on transcription factors, their binding sites, nucleotide distribution matrices and regulated genes as well as the complementing database TRANSCompel® on composite elements have been further enhanced on various levels.

TL;DR: A library of hidden Markov models (HMM) to represent their DNA-binding domains was developed and applied on the UniProt/Swiss-Prot database, leading to a systematic classification of further DNA- binding protein entries.

TL;DR: A state-of-the-art promoter analysis for potential transcription factor binding sites in combination with a knowledge-based analysis of the upstream pathway that control the activity of these TFs is shown to lead to hypothetical master regulators.

TL;DR: A novel software tool aiming to identify promoter-enhancer models based on the composition of transcription factor (TF) binding sites and their pairs using the positional weight matrix (PWM) library collected in TRANSFAC® and therefore provides the possibility to search for a large variety of different TF binding sites.

TL;DR: In this article, an upstream analysis strategy for causal analysis of multiple "omics" data is presented, which analyzes promoters using the TRANSFAC database, combines it with an analysis of the upstream signal transduction pathways and identifies master regulators as potential drug targets for a pathological process.