Integrating DNA methylation and gene expression data in a single gene network using the iNETgrate package.
Journal
Scientific reports
ISSN: 2045-2322
Titre abrégé: Sci Rep
Pays: England
ID NLM: 101563288
Informations de publication
Date de publication:
08 Dec 2023
08 Dec 2023
Historique:
received:
08
08
2023
accepted:
23
11
2023
medline:
9
12
2023
pubmed:
9
12
2023
entrez:
8
12
2023
Statut:
epublish
Résumé
Analyzing different omics data types independently is often too restrictive to allow for detection of subtle, but consistent, variations that are coherently supported based upon different assays. Integrating multi-omics data in one model can increase statistical power. However, designing such a model is challenging because different omics are measured at different levels. We developed the iNETgrate package ( https://bioconductor.org/packages/iNETgrate/ ) that efficiently integrates transcriptome and DNA methylation data in a single gene network. Applying iNETgrate on five independent datasets improved prognostication compared to common clinical gold standards and a patient similarity network approach.
Identifiants
pubmed: 38066050
doi: 10.1038/s41598-023-48237-8
pii: 10.1038/s41598-023-48237-8
pmc: PMC10709411
doi:
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
21721Subventions
Organisme : NIA NIH HHS
ID : P30 AG066546
Pays : United States
Informations de copyright
© 2023. The Author(s).
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