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Workshop Objective:

This is a 4-hour workshop. The morning session (10am - 12pm) provides a brief introduction to techniques, platforms, and methods used in chromatin profiling experiments, including Transcription Factor / Histone ChIP-Seq and ATAC-Seq. The afternoon session (1pm - 3pm) focuses on hands-on data analysis practice using HSLS-licensed CLC Genomics Workbench, Partek Flow, and TRANSFAC/Match software.

Participants will learn how to

  • import NGS reads from a GEO dataset
  • align ChIP-Seq reads to a reference genome
  • identify and annotate peaks
  • visualize and summarize the ChIP-Seq results
  • search for known transcription factor binding motifs using TRANSFAC/Match software 

Target Audience:

Experimental biologists seeking to analyze ChIP-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 command line interface is required.

Workshop Requirements:

Workshop Guide:

Suggested Reading:


Please include the following statement in the acknowledgments section for all publications, posters, and presentations: Data analysis was performed using {name of software} software licensed through the Molecular Biology Information Service of the Health Sciences Library System, University of Pittsburgh.

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