Wednesday, March 20, 2024, 1-4 p.m.
Hybrid Session: Attend online or in person in the Falk Library Classroom
Register for Gene Regulation

This workshop provides an overview of resources and search strategies on transcriptional regulation. Emphasis will be given to HSLS-licensed TRANSFAC/Match and Correlation Engine software and open-access tools such as the UCSC genome browser and Cistrome data browser.

Target Audience: Experimental biologists seeking to analyze bulk RNA-Seq data generated through experiments or retrieved from a repository such as GEO. The software covered in the workshop operates through a user-friendly, point-and-click graphical user interface, so neither programming experience nor familiarity with the command-line interface is required.

Upon completing this class, you should be able to:
  • retrieve information linked with a transcription factor
  • retrieve the promoter sequence for a gene of interest
  • extract transcription regulatory elements–promoters, enhancers, and silencers associated with a gene of interest
  • identify the transcription factor binding site(s) present in a DNA sequence
  • identify transcription factor binding sites present in a ChIP-Seq dataset (motif discovery)
  • identify upstream regulatory transcription factors for a differentially expressed gene data set
  • start with a gene expression data set and find correlated studies with gene perturbation experiments (knock-out, knock-down, etc.) available in the GEO database
  • start with a ChIP-Seq data set and find factors that have a significant binding overlap with the ChIP-Seq peak set
This class will be recorded and shared with attendees. Class materials will be shared with attendees.