Hands on introduction to ChIP-seq and ATAC-seq analysis
General context
This training gives an introduction to ChIP-seq and ATAC-seq data analysis, covering the processing steps starting from the reads to the peaks. Among all possible downstream analyses, the practical aspect will focus on motif analyses. A particular emphasis will be put on deciding which downstream analyses to perform depending on the biological question.
The aim is to:
- have an understanding of the nature of ChIP-seq and ATAC-seq data
- perform a complete analysis workflow including QC, read mapping, visualization in a genome browser and peak-calling using GenePattern
- have an overview of possible downstream analyses
- perform a motif analysis with online web programs
This training does not cover all methods available today. It does not aim at bringing users to a professional NGS analyst level but provides enough information to allow biologists understand what DNA sequencing practically is and to communicate with NGS experts for more in-depth needs.
Skills required to follow this training include basic knowledge of Illumina NGS read structure . People who lack these skills can follow the 'Introduction to NGS analysis' training.
Trainers
Morgane Thomas-Chollier
Morgane Thomas-Chollier is a computational biologist and associate professor at Ecole normale supérieure (Paris, France). She's president of the Société française de Bioinformatique and Junior Member of Institut Universitaire de France.
Her research interests are transcriptional regulation, high-throughput functional genomics and evo-devo.
Program
9h30 - 11h00: Introduction - Downloading the data
11h15 - 12h30: Quality and stats - Mapping
12h30-13h30: Lunch
13h30-15h00: Peak calling - Visualization
15h15-17h00: Motif analysis - Questions
Practical info
17 February 2020
Leuven - Park Inn by Radisson
Martelarenlaan 36
3010 Leuven
Belgium
17 February 2020
Leuven - Park Inn by Radisson
The hotel is located 300m from Leuven Central Station. The hotel connects to Leuven Central Station by a pedestrian bridge.
17 February 2020
Leuven - Park Inn by Radisson
Park Inn hotel has no own parking. It is possible to park underground in P1-Parking Station Leuven, Martelarenlaan 4, 3010 Leuven or in parking De Bond, Martelarenlaan 18, 3010 Leuven.
17 February 2020
Leuven - Park Inn by Radisson
+32 16 61 66 02
sales.leuven@parkinn.com