Objectif "Somatic structural variation (i.e. those structural rearrangements arising in a tumour) is found in almost all cancer genomes studied in detail. Current next-generation sequencing (NGS) strategies allow the identification of genomic structural variation with an unprecedented base pair resolution, revealing a complex landscape of somatic rearrangements in several cancer types. The studies carried out so far have focused upon four main types of rearrangement, namely deletions, amplifications, inversions, and translocations, but the complement of somatic insertions that characterizes cancer genomes remains mostly unexplored. These genomic insertions are mainly caused by transposable elements (TEs) and exogenous viruses, and despite the fact that these sequences can lead to disease little is known about the extent they can generate diversity in somatic cells and contribute to cancer development. Thus, taking advantage of the availability of the sequencing data generated by the international cancer genome consortium (ICGC), the purpose of this project is to use NGS data to explore and characterize the landscape of somatic insertions attributable to TEs and exogenous viruses in human cancer. TASK 1 of this project aims to identify the somatic insertions due to TEs and exogenous viruses in a total of 1,000 human cancer genomes for breast, bone and blood. A unique bioinformatics pipeline will be developed to identify the entire complement of somatic insertions by the analysis of whole-genome sequencing data of these cancers. TASK 2 aims to determine if somatic insertions in Task 1 impact gene function, by investigating the presence of aberrant splicing and/or gene expression and aberrant methylation profiles using RNA sequencing data and whole-genome methylation data. This project will provide essential insights into structural and functional impact of genomic insertions in cancer. This will lead to a better understanding of molecular mechanisms involved in oncogenesis." Champ scientifique natural sciencesbiological sciencesmicrobiologyvirologymedical and health sciencesclinical medicineoncologynatural sciencesbiological sciencesgeneticsRNAnatural sciencesbiological sciencesgeneticsgenomes Programme(s) FP7-PEOPLE - Specific programme "People" implementing the Seventh Framework Programme of the European Community for research, technological development and demonstration activities (2007 to 2013) Thème(s) FP7-PEOPLE-2012-IEF - Marie-Curie Action: "Intra-European fellowships for career development" Appel à propositions FP7-PEOPLE-2012-IEF Voir d’autres projets de cet appel Régime de financement MC-IEF - Intra-European Fellowships (IEF) Coordinateur GENOME RESEARCH LIMITED Contribution de l’UE € 221 606,40 Adresse WELLCOME SANGER INSTITUTE WELLCOME GENOME CAMPUS HINXTON CB10 1SA SAFFRON WALDEN Royaume-Uni Voir sur la carte Région East of England East Anglia Cambridgeshire CC Type d’activité Research Organisations Contact administratif David Davidson (Mr.) Liens Contacter l’organisation Opens in new window Site web Opens in new window Coût total Aucune donnée