Challenges of Transcription Factor Binding Site Prediction

Transcription factors are recognized as important components of signaling cascades controlling all types of normal cellular processes as well as response to external stimulus, conditions of disease, drug treatment, and more. However, comparatively few known transcription factor binding sites have been experimentally characterized relative to the total number of binding sites expected. This large gap makes the ability to reliably predict transcription factor binding sites an important tool in furthering our understanding of critical biological processes. But which method of prediction is the best? It all depends on what you are trying to address.

This webinar discusses different methods for predicting transcription factor binding sites with TRANSFAC and ExPlain™, with a focus on the challenges of scaling up from analysis of individual sequences to genome-wide analyses.

Learn about:

  • Strengths and weaknesses of pattern and matrix-based methods
  • Analysis of individual as well as genome-wide sequences for TF binding sites
  • Important parameters to consider when analyzing larger numbers of genes/promoters

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