Tutorial

ChIP-Seq data analysis - Identification of the binding sites of the T-cell acute lymphocytic leukemia protein 1 (TAL1)

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ChIP-sequencing is a method used to analyze protein interactions with DNA.

Questions of the tutorial:

  • How is raw ChIP-seq data processed and analyzed?
  • What are the binding sites of Tal1?
  • Which genes are regulated by Tal1?

Objectives of the tutorial:

  • Inspect read quality with FastQC
  • Perform read trimming with Trimmomatic
  • Align trimmed reads with BWA
  • Assess quality and reproducibility of experiments
  • Identify Tal1 binding sites with MACS2
  • Determine unique/common Tal1 binding sites from G1E and Megakaryocytes
  • Identify unique/common Tal1 peaks occupying gene promoters
  • Visually inspect Tal1 peaks with Trackster

Resource type: Tutorial

Authors: malloryfreeberg, moheydarian, vivekbhr, joachimwolff, erxleben

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