ArticleBioinformatics advances2025
CoRTE: a web-service for constructing temporal networks from genotype-tissue expression data.
Article in Bioinformatics advances, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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Abstract
Motivation: A comprehensive and in-depth deciphering of the dynamics concerning gene expressions is essential for understanding intricate biological mechanisms; for instance, the latter can be effectively addressed via network science, and Gene Co-expression Networks (GCNs), specifically. However, a typical GCN is based on a static model, which limits the ability to reflect changes that occur over time. To overcome this issue, we designed an open-source user-friendly web-service for constructing temporal networks from genotype-tissue expression data: Results: CoRTE bases the construction of a temporal network on the statistical analysis of the related gene co-expressions across successive age ranges, to define an ordered set of time points. In our experimentation we investigated gene co-expression dynamics across age groups in brain tissues associated with Alzheimer's Disease, processing curated aging-related data via the proposed web-service. The latter has effectively generated the temporal network consisting of a set of gene pairs that showed statistically significant co-expressions over time. Results demonstrated its capacity to capture time-dependent gene interactions relevant for aging-related disease progression. From a purely applicative point of view, CoRTE may be particularly suitable for exploring aging-related changes, disease development, and other time-dependent biological events. Availability and implementation: CoRTE is freely available at https://github.com/pietrocinaglia/corte-ws.
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