Epigenetics refers to reversible, heritable changes in gene regulation that occur without a change in DNA sequence. These changes are usually due to methylation of cytosine bases in DNA. In this work we review existing method- ologies and propose new ones for their use in epigenomics. High throughtput methods to estimate methylation levels were developed as well as methods to make a biological interpretation of the data based on gene sets enrichment. High correlation was obtained between our methylation estimations and ex- perimental data from MeDIP experiments. Our proposed methods for gene sets enrichment performed better than well-known methods. / L’ ́epigenetique d ́ecrit les changements re'versibles et he'ritables de la r ́egulation g ́enique qui arrivent sans changements dans la s ́equence d’ADN. Ces change- ments sont habituellement dus `a la m ́ethylation de cytosines dans l’ADN. Dans cette th`ese, nous r ́ecapitulons les m ́ethodes bioinformatiques existantes et nous proposons des nouvelles m ́ethodes pour des probl`emes reli ́es `a l’ ́epig ́en ́etique. Les m ́ethodes a haut d ́ebit pour l’estimation du niveau de m ́ethylation sont d ́evelopp ́ees, de mˆeme que des m ́ethodes pour l’interpr ́etation biologique des donn ́ees en se basant sur l’enrichissement d’ensemble de g`enes de la mˆeme fonction. De hauts niveaux de corr ́elation sont obtenus entre nos estim ́es et les donn ́ees exp ́erimentales provenant d’exp ́eriences de type MeDIP. Les m ́ethodes que nous proposons pour l’analyse d’enrichissement de fonction des g`enes performent mieux que les autres m ́ethodes existantes.
| Identifer | oai:union.ndltd.org:LACETR/oai:collectionscanada.gc.ca:QMM.40820 |
| Date | January 2009 |
| Creators | Cingolani, Pablo |
| Contributors | Mathieu Blanchette (Internal/Supervisor), Michael Trevor Hallett (Internal/Cosupervisor2) |
| Publisher | McGill University |
| Source Sets | Library and Archives Canada ETDs Repository / Centre d'archives des thèses électroniques de Bibliothèque et Archives Canada |
| Language | English |
| Detected Language | French |
| Type | Electronic Thesis or Dissertation |
| Format | application/pdf |
| Coverage | Master of Science (School of Computer Science) |
| Rights | All items in eScholarship@McGill are protected by copyright with all rights reserved unless otherwise indicated. |
| Relation | Electronically-submitted theses. |
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