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Computational prediction of miRNA/mRNA duplexomes at the whole human genome scale reveals functional subnetworks of interacting genes with embedded miRNA annealing motifs

Abstract : Keywords: miRNA mRNA collection RNA annealing subclasses of mRNA A B S T R A C T Perfect annealing between microRNAs (miRNAs) and messenger RNAs (mRNAs) was computationally searched at a broad scale in the human genome to determine whether theoretical pairing is restrictively represented in functional subnetworks or is randomly distributed. Massive RNA interference (RNAi) pairing motifs in genes constitute a remarkable subnetwork that displays highly genetically and biochemically interconnected genes. These analyses show unexpected repertoires of genes defined by their congruence in comatching with miRNAs at numerous sites and by their interconnection based on protein/protein interactions or proteins regulating the activity of others. This offers insights into the putatively coregulated homeostasis of large networks of genes by RNAi, whereas other networks seem to be independent of this regulatory mode. Genes accordingly defined by theoretical RNAi pairing cluster mainly in subnetworks related to cellular, metabolic and developmental processes and their regulation. Indeed, genes harboring numerous potential sites of hybridization with miRNAs are highly enriched with GO terms depicting the abovementioned processes and are grouped in a subnetwork of genes that are significantly more highly connected than they would be according to a random distribution. The significant number of interacting genes that present numerous potential comatches with miRNAs suggests that they may be under the control of the integrative and concerted action of multiple miRNAs.
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https://hal.archives-ouvertes.fr/hal-02999731
Contributor : Claude Pasquier Connect in order to contact the contributor
Submitted on : Wednesday, November 11, 2020 - 6:35:43 AM
Last modification on : Friday, February 12, 2021 - 3:32:57 AM
Long-term archiving on: : Friday, February 12, 2021 - 6:09:45 PM

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Claude Pasquier, Alain Robichon. Computational prediction of miRNA/mRNA duplexomes at the whole human genome scale reveals functional subnetworks of interacting genes with embedded miRNA annealing motifs. Computational Biology and Chemistry, Elsevier, 2020, 88, pp.107366. ⟨10.1016/j.compbiolchem.2020.107366⟩. ⟨hal-02999731⟩

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