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3DAROC16 3C-based data analysis and 3D reconstruction of chromatin foldingCourse Timetable (provisional) |
| Mon, Oct 10th |
Day #1
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| 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, Oct 11th |
Day #2
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| 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 applications (I) |
| 16:00 - 16:30 | Tea Break |
| 16:30 - 18:00 | Hi-C contact matrices: filtering and normalization |
| Wed, Oct 12th |
Day #3
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| 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, Oct 13th |
Day #4
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| 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 | Analysis of the results |
| Fri, Oct 14th |
Day #5
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| 09:30 - 11:00 |
Morning wrap-up: what have we done so far? Multiscale Genomics: From genomes to structures |
| 11:00 - 11:30 | Coffee Break |
| 11:30 - 12:30 | Coarse-Grained DNA and Chromatin Dynamics |
| 12:30 - 14:00 | Lunch Break |
| 14:00 - 16:00 | Nucleosome positioning and Nucleosome Dynamics |
| 16:00 - 16:30 | Tea Break |
| 16:30 - 18:00 | Final wrap-up session |
| Course Homepage |
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Instituto Gulbenkian de Ciência, Apartado 14, 2781-901 Oeiras, Portugal Last updated: Sep 3rd 2016 |