Chromatin 3D modelling from sparse 3C-based datasets
Year: 2020
Type: dissertation
Abstract: Genome spatial organisation and transcriptional activity are tightly coordinated to ensure the correct function of the cell. Thus, proper understanding of the chromatin organisation is needed to deepen into the processes regulating the activity of specific loci of interest. In this matter, Chromatin Conformation Capture (3C)-based technologies have helped to increase the understanding of the genomic interaction landscape. Particularly, sparse 3C technologies, like promoter capture Hi-C (pcHi-C), have focused on specific interactions of interest to unveil the interaction landscape associated with functional elements, like promoters. However, to properly characterize the sparse interaction profiles of pcHi-C, it is important to contextualize these interactions in a 3D perspective. Hence, in this thesis, we have developed a tool for the 3D modelling and analysis of sparse 3C-based datasets like pcHi-C, and we have probed its utility to help interpreting the regulatory architecture surrounding genes associated with cell-type or tissue-specific activ
Authors: Mendieta Esteban, Julen
Language: English
Subfield: Molecular Biology
Domain: Life Sciences
Open Access status: green
Funders: Wellcome Trust, World Cancer Research Fund International, Ministerio de Ciencia, Innovación y Universidades, Centres de Recerca de Catalunya, National Institute for Health and Care Research, Imperial College London, European Commission, University of Reading, Deutsche Forschungsgemeinschaft, Volkswagen Foundation, Generalitat de Catalunya, Nederlandse Organisatie voor Wetenschappelijk Onderzoek, Ministerio de Ciencia e Innovación, Medical Research Council, World Cancer Research Fund, Agència de Gestió d'Ajuts Universitaris i de Recerca, Instituto de Salud Carlos III, European Regional Development Fund, NIHR Imperial Biomedical Research Centre, European Social Fund, H2020 European Research Council, FP7 Ideas: European Research Council
Awards: G1028663679, Linking Regulatory Elements Harboring Common Disease-Associated Variants to Their Target Genes, G119964413, G1679186985, G1888088267, G1953887145, G2179367642, G2191045670, Analysis of tridimensional changes caused by type 2 Diabetes-Associated varianTs, Understanding the dynamic determinants of glucose homeostasis and social capability to promote Healthy and active aging, G2426432956, G2473961061, G265847165, G2861369480, G3207356259, Development of a systems biomedicine approach for risk identification, prevention and treatment of type 2 diabetes, G3403120483, G393177772, G4151817528, G434337789, G4760961572, G496129201, G536623562, G5524993953, G5702163051, Multi-Scale Complex Genomics, G6298273575, G6327245394, G7071179771, G7134914134, Dynamics of human genome architecture in stable and transient gene expression changes, Expanding the genetic etiological and diagnostic spectrum of monogenic diabetes mellitus, G8181105605, G8776062500, G8795186061
OpenAlex ID: W3144644112