3DAROC21

3C-based data analysis and 3D reconstruction of chromatin folding

Course Timetable (provisional)
Mon, Oct 4th
Day #1
10:00 - 10:15 Welcome and introduction
10:15 - 10:45 Overview on structure determination
10:45 - 11:00 Break
11:00 - 11:30 3D modeling of genomes and genomic domains
11:30 - 12:00 Break
12:00 - 13:00 Live Introduction to Linux and working environment
13:00 - 14:00 Lunch Break
14:00 - 15:00 Next Generation Sequencing (NGS) and data handling
Proposed exercise
15:00 - 16:00 From raw data to Hi-C contact matrices
Proposed exercise
16:00 - 16:30 Break
16:30 - 17:30 Live Discussion
Tue, Oct 5st
Day #2
09:30 - 10:00 Live Discussion
10:00 - 10:30 Chromatin structure and Hi-C data
10:30 - 10:45 Break
10:45 - 11:15 Integrative modeling applied to chromatin
11:15 - 11:30 Break
11:30 - 12:00 Biological applications (I)
12:00 - 12:30 Break
12:30 - 13:00 Biological applications (II and III)
13:00 - 14:00 Lunch Break
14:00 - 15:00 Hi-C contact matrices: filtering and normalization
Proposed exercise
15:00 - 16:00 Compartment detection and analysis
Proposed exercise
16:00 - 16:30 Break
16:30 - 17:30 Live Discussion
Wed, Oct 6nd
Day #3
09:30 - 10:00 Live Discussion
10:00 - 10:30 Biological applications (III)
10:30 - 10:45 Break
10:45 - 11:45 Topologically Associated Domains detection and analysis
Proposed Exercise
11:45 - 12:45 Comparison between experiments
Proposed Exercise
12:45 - 14:00 Lunch Break
14:00 - 15:00 3D Modeling of Hi-C data with TADbit
Proposed exercise
15:00 - 16:00 3D Modeling with molecular dynamics: TADdyn
Proposed exercise
16:00 - 16:30 Break
16:30 - 18:00 Live Discussion and farewell
Course Homepage

Instituto Gulbenkian de Ciência,

Apartado 14, 2781-901 Oeiras, Portugal

GTPB Homepage

IGC Homepage

Last updated: September 7th 2021