CSDM13 Chromosome structure determination using modelling and Hi-C dataDownloadable poster in PDF |
IMPORTANT DATES for this Course
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Instructors: |
Davide Baù Affiliation: Centro Nacional de Análisis Genómico (CNAG) and Center for Genomic Regulation (CRG), Barcelona, ES |
François Serra
François Serra obtained his Degree in Biology, specialized in Physiology and Neurophysiology, his Master's Degree in Structural genomics and bioinformatics
(Strasbourg I Universty, France) and it's PhD in Evolutionary Genomics in the Department of Bioinformatics at the CIPF (Valencia). He is now part of the Structural Genomics
team of Marc Marti-Renom at CNAG and at CRG (Barcelona). Affiliation: Centro Nacional de Análisis Genómico (CNAG) and Center for Genomic Regulation (CRG), Barcelona, ES |
Course descriptionThe sequence of a genome alone does not carry enough information to fully understand how genomic processes are carried out in the cell nucleus; to achieve this, the knowledge of the three-dimensional (3D) architecture of a genome is necessary. Advances in genomic technologies and the development of new analytical methods, such as 3C-based methods, have allowed getting insights at unprecedented resolution into how the genome is organized. Recently, it has been shown that chromatin is organized in Topologically Associating Domains (TADs), large interaction domains that appear to be conserved among different cell types. In this course, participants will learn to use TADBit, a software for the analysis and 3D modeling of Topologically Associated Domains (TADs) and genomes. TADBit is based on a computational module of the Integrative Modeling Platform (IMP, http://www.integrativemodeling.org) that uses chromosome conformation capture data to determine the 3D architecture of genomic domains and entire genomes at unprecedented resolutions.Participants can bring-in specific biological questions and/or their on data to work on during the course. |
Target AudienceThe course is oriented to experimental researchers with minimal computational skills, at the graduate and post-graduate levels. It is also suitable for bioinformatics developers at all levels. We anticipate that this course is attended by people with several types of interests in genome organization. It is likely that they may also aim at getting involved in generating Hi-C data for chromosome structure determination and that they want to model its 3D representation, but that does not need to be the case for all the participants: they may, for example, just want to explore publicly available data. |
Course Pre-requisitesRecommended Linux and basic Python programming skills, graduate level in Life Sciences. |
Detailed Program |
Instituto Gulbenkian de Ciência, Apartado 14, 2781-901 Oeiras, Portugal Last updated: October 29th 2013 |