Multi-scale structural community organisation of the human genome
hal.structure.identifier | UNICANCER - Institut régional du Cancer Montpellier Val d'Aurelle [ICM] | |
hal.structure.identifier | Laboratoire de Physique de l'ENS Lyon [Phys-ENS] | |
dc.contributor.author | BOULOS, Rasha E. | |
hal.structure.identifier | GIPSA - Communication Information and Complex Systems [GIPSA-CICS] | |
hal.structure.identifier | Laboratoire de Physique de l'ENS Lyon [Phys-ENS] | |
dc.contributor.author | TREMBLAY, Nicolas | |
hal.structure.identifier | Laboratoire Ondes et Matière d'Aquitaine [LOMA] | |
hal.structure.identifier | Laboratoire de Physique de l'ENS Lyon [Phys-ENS] | |
dc.contributor.author | ARNEODO, Alain | |
hal.structure.identifier | Laboratoire de Physique de l'ENS Lyon [Phys-ENS] | |
dc.contributor.author | BORGNAT, Pierre | |
hal.structure.identifier | Laboratoire de Physique de l'ENS Lyon [Phys-ENS] | |
dc.contributor.author | AUDIT, Benjamin | |
dc.date.created | 2016-08-23 | |
dc.date.issued | 2017 | |
dc.identifier.issn | 1471-2105 | |
dc.description.abstractEn | Background: Structural interaction frequency matrices between all genome loci are now experimentally achievable thanks to high-throughput chromosome conformation capture technologies. This ensues a new methodological challenge for computational biology which consists in objectively extracting from these data the structural motifs characteristic of genome organisation. Results: We deployed the fast multi-scale community mining algorithm based on spectral graph wavelets to characterise the networks of intra-chromosomal interactions in human cell lines. We observed that there exist structural domains of all sizes up to chromosome length and demonstrated that the set of structural communities forms a hierarchy of chromosome segments. Hence, at all scales, chromosome folding predominantly involves interactions between neighbouring sites rather than the formation of links between distant loci. Conclusions: Multi-scale structural decomposition of human chromosomes provides an original framework to question structural organisation and its relationship to functional regulation across the scales. By construction the proposed methodology is independent of the precise assembly of the reference genome and is thus directly applicable to genomes whose assembly is not fully determined. | |
dc.description.sponsorship | Traitement de signaux sur graphes - ANR-14-CE27-0001 | |
dc.language.iso | en | |
dc.publisher | BioMed Central | |
dc.rights.uri | http://creativecommons.org/licenses/by/ | |
dc.subject.en | Human genome | |
dc.subject.en | Chromosome interaction network | |
dc.subject.en | Multi-scale community mining | |
dc.subject.en | Structural domain hierarchical organisation | |
dc.subject.en | Spectral graph wavelets | |
dc.title.en | Multi-scale structural community organisation of the human genome | |
dc.type | Article de revue | |
dc.identifier.doi | 10.1186/s12859-017-1616-x | |
dc.subject.hal | Physique [physics]/Physique [physics]/Biophysique [physics.bio-ph] | |
dc.subject.hal | Informatique [cs]/Bio-informatique [q-bio.QM] | |
dc.subject.hal | Sciences du Vivant [q-bio]/Génétique/Génétique humaine | |
bordeaux.journal | BMC Bioinformatics | |
bordeaux.page | 209 | |
bordeaux.volume | 18 | |
bordeaux.issue | 1 | |
bordeaux.peerReviewed | oui | |
hal.identifier | hal-01507455 | |
hal.version | 1 | |
hal.popular | non | |
hal.audience | Internationale | |
hal.origin.link | https://hal.archives-ouvertes.fr//hal-01507455v1 | |
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