Course Announcement (Reminder) Applications are open for: CSDM13 "Chromosome structure determination using modeling and Hi-C data" with Davide Baù and François Serra (CNAG and CRG, Barcelona) IMPORTANT DATES for this Course Deadline for applications: November 20th 2013 Notification of acceptance within 72 hours of application Course date: November 27th to November 29th 2013 More details at the course website http://gtpb.igc.gulbenkian.pt/bicourses/CSDM13/ *Course description* The 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 Audience* The 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. Pedro Fernandes GTPB Organiser PS. You may be interested in a recent review on the subject of this course, "Exploring the three-dimensional organization of genomes: interpreting chromatin interaction data" Job Dekker, Marc A. Marti-Renom & Leonid A. Mirny Nature Reviews Genetics, 14, 390–403 (2013) doi:10.1038/nrg3454 http://sgt.cnag.cat/services/BBibTeX/pdfs/20130509_DekkerMarti-RenomMirny_NR... -- -- Pedro Fernandes Instituto Gulbenkian de Ciência Apartado 14 2781-901 OEIRAS PORTUGAL Tel +351 21 4407912 http://gtpb.igc.gulbenkian.pt