Impact of Transposable Elements in introns on the functional annotation of C. sempervirens genes. GO term enrichment analysis.

DOI

We investigated the impact of TE in genes by comparing their functional annotation with those of the whole Cupressus genome. Among the 42,980 C. sempervirens genes, 18,257 genes are associated with at least one GO term. Among the 18,224 genes with TE in introns, a total of 8,339 genes were associated with at least one GO term. We performed a GO terms enrichment analysis using the topGO R package 2.58.0 with R 4.3.3. We considered the Molecular Function (MF) section of the GO graph structure and we used Fisher's exact statistical test based on gene count to identify the most significant GO terms. GO terms associated with at least 10 genes were kept for the analysis. In total, 210 GO terms were found significantly more frequent in genes containing TE (pvalue < 0.01).

R, 4.3.3

topGO R package, 2.58.0

Identifier
DOI https://doi.org/10.57745/DG6VRQ
Metadata Access https://entrepot.recherche.data.gouv.fr/oai?verb=GetRecord&metadataPrefix=oai_datacite&identifier=doi:10.57745/DG6VRQ
Provenance
Creator Lesur Kupin, Isabelle
Publisher Recherche Data Gouv
Contributor Lesur Kupin, Isabelle
Publication Year 2025
Rights etalab 2.0; info:eu-repo/semantics/openAccess; https://spdx.org/licenses/etalab-2.0.html
OpenAccess true
Contact Lesur Kupin, Isabelle (INRAE)
Representation
Resource Type Dataset
Format text/plain
Size 13677
Version 2.2
Discipline Geosciences; Earth and Environmental Science; Environmental Research; Natural Sciences