Genome-wide prediction of DNA mutation effect on nucleosome positions for yeast synthetic genomics - CNRS - Centre national de la recherche scientifique Accéder directement au contenu
Article Dans Une Revue Genome Research Année : 2021

Genome-wide prediction of DNA mutation effect on nucleosome positions for yeast synthetic genomics

Résumé

Genetically modified genomes are often used today in many areas of fundamental and applied research. In many studies, coding or noncoding regions are modified in order to change protein sequences or gene expression levels. Modifying one or several nucleotides in a genome can also lead to unexpected changes in the epigenetic regulation of genes. When designing a synthetic genome with many mutations, it would thus be very informative to be able to predict the effect of these mutations on chromatin. We develop here a deep learning approach that quantifies the effect of every possible single mutation on nucleosome positions on the full Saccharomyces cerevisiae genome. This type of annotation track can be used when designing a modified S. cerevisiae genome. We further highlight how this track can provide new insights on the sequence-dependent mechanisms that drive nucleosomes' positions in vivo.
Fichier principal
Vignette du fichier
Predicting_the_effect_of_single_mutation_on_nucleosome_positioning_with_convolutional_neural_network__Copy_(1).pdf (6.25 Mo) Télécharger le fichier
Origine : Fichiers produits par l'(les) auteur(s)

Dates et versions

hal-03158738 , version 1 (04-03-2021)

Identifiants

Citer

Etienne Routhier, Edgard Pierre, Ghazaleh Khodabandelou, Julien Mozziconacci. Genome-wide prediction of DNA mutation effect on nucleosome positions for yeast synthetic genomics. Genome Research, 2021, 31 (2), pp.317-326. ⟨10.1101/gr.264416.120⟩. ⟨hal-03158738⟩
133 Consultations
49 Téléchargements

Altmetric

Partager

Gmail Facebook X LinkedIn More