e-learning
Identification of the binding sites of the T-cell acute lymphocytic leukemia protein 1 (TAL1)
Abstract
This tutorial uses ChIP-seq datasets from a study published by. The goal of this study was to investigate "the dynamics of occupancy and the role in gene regulation of the transcription factor TAL1, a critical regulator of hematopoiesis, at multiple stages of hematopoietic differentiation."
About This Material
This is a Hands-on Tutorial from the GTN which is usable either for individual self-study, or as a teaching material in a classroom.
Questions this will address
- How is raw ChIP-seq data processed and analyzed?
- What are the binding sites of TAL1?
- Which genes are regulated by TAL1?
Learning Objectives
- 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
Licence: Creative Commons Attribution 4.0 International
Keywords: ChIP-seq, Epigenetics
Target audience: Students
Resource type: e-learning
Version: 10
Status: Active
Prerequisites:
- Introduction to Galaxy Analyses
- Mapping
- Quality Control
- Trackster
Learning objectives:
- 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
Date modified: 2024-06-25
Date published: 2016-12-20
Scientific topics: Epigenomics, ChIP-seq
External resources:
Activity log
