Inferring gene-pathway associations from consolidated transcriptome datasets: an interactive gene network explorer for <i>Tetrahymena thermophila</i>.

ABSTRACT: Although an established model organism, Tetrahymena thermophila remains comparatively inaccessible to high throughput screens, and alternative bioinformatic approaches still rely on unconnected datasets and outdated algorithms. Here, we report a new approach to consolidating RNA-seq and microarray data based on a systematic exploration of parameters and computational controls, enabling us to infer functional gene associations from their co-expression patterns. To illustrate the power of this approach, we took advantage of new data regarding a previously studied pathway, the biogenesis of a secretory organelle called the mucocyst. Our untargeted clustering approach recovered over 80% of the genes that were previously verified to play a role in mucocyst biogenesis. Furthermore, we tes

SUBMITTER: Bertagna MA 

PROVIDER: S-EPMC12107436 | biostudies-literature | 2025 Jun

REPOSITORIES: biostudies-literature