3DAROC20

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

Course Timetable (provisional)
Mon, Apr 20th
Day #1
09:30 - 10:00 Welcome and introductions
10:00 - 11:00 Overview on structure determination
11:00 - 11:30 Coffee Break
11:30 - 12:30 3D modeling of genomes and genomic domains
12:30 - 14:00 Lunch Break
14:00 - 15:00 Introduction to Linux and Python: the Jupyter notebook
15:00 - 16:00 Next Generation Sequencing (NGS) and data handling
16:00 - 16:30 Tea Break
16:30 - 18:00 From raw data to Hi-C contact matrices
Tue, Apr 21st
Day #2
09:30 - 11:00 Morning wrap-up: what have we done so far?
Chromatin structure and Hi-C data
11:00 - 11:30 Coffee Break
11:30 - 12:30 Integrative modeling applied to chromatin
12:30 - 14:00 Lunch Break
14:00 - 16:00 Biological application (I)
16:00 - 16:30 Tea Break
16:30 - 18:00 Hi-C contact matrices: filtering and normalization
Wed, Apr 22nd
Day #3
09:30 - 11:00 Morning wrap-up: what have we done so far?
Biological applications (II)
11:00 - 11:30 Coffee Break
11:30 - 12:30 Compartment detection and analysis
12:30 - 14:00 Lunch Break
14:00 - 16:00 Topologically Associated Domains detection and analysis
16:00 - 16:30 Tea Break
16:30 - 18:00 Comparison between experiments
Thu, Apr 23rd
Day #4
09:30 - 11:00 Morning wrap-up: what have we done so far?
Biological applications (III)
11:00 - 11:30 Coffee Break
11:30 - 12:30 3D Modeling of real Hi-C data with TADbit (I)
12:30 - 14:00 Lunch Break
14:00 - 16:00 3D Modeling of real Hi-C data with TADbit (II)
16:00 - 16:30 Tea Break
16:30 - 18:00 Final wrap-up session
Course Homepage

Instituto Gulbenkian de Ciência,

Apartado 14, 2781-901 Oeiras, Portugal

GTPB Homepage

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Last updated: February 27th 2020