A kinetic-dynamic model for regulatory RNA processing.

Sher Singh; Hsiu-Yi Ou Yang; Mei-Ying Chen; Sung-Liang Yu

doi:10.1016/j.jbiotec.2006.07.034

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A kinetic-dynamic model for regulatory RNA processing.

Sher Singh·Hsiu-Yi Ou Yang·Mei-Ying Chen·Sung-Liang Yu

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Abstract

A kinetic-dynamic model was proposed to simulate RNA processing by determining four essential reaction rates, including the rates of transcription, pre-mRNA turnover, pre-mRNA splicing, and mRNA decay. A family competition evolutionary algorithm (FCEA) was adapted herein to approximate these rates. Several artificial datasets were used to verify the correctness and robustness of the FCEA. The model was finally applied on time series data of yeast prp4-l mutant cells for determination of rates of RNA processing. Based on the FCEA, the model indicated that the pre-mRNA splicing was decreased in the mutant cells as well as the possible effects on transcription, pre-mRNA turnover, and mRNA decay, which was consistent with surveyed literature.

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Kinetics Models, Biological Protein Serine-Threonine Kinases RNA Precursors RNA Splicing RNA Splicing Factors RNA Stability Ribonucleoprotein, U4-U6 Small Nuclear Saccharomyces cerevisiae Saccharomyces cerevisiae Proteins Journal Article Research Support, Non-U.S. Gov't Review

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Sher Singh, Hsiu-Yi Ou Yang, Mei-Ying Chen, Sung-Liang Yu. 2006-08-04. A kinetic-dynamic model for regulatory RNA processing.. https://doi.org/10.1016/j.jbiotec.2006.07.034

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