Computational resources and strategies to assess single-molecule dynamics of the translation process in S. cerevisiae

• Type: Another Publication in an International Scientific Journal
• Date: 2021

Authors

Magalhaes, BT (Author) Other; Lourenco, A (Author) Other; Azevedo, NF (Author) FEUP

Journal

Title: Briefings in Bioinformatics

Vol. 22

Pages: 219-231

ISSN: 1467-5463

Publisher: Oxford University Press

Indexing

ISI Web of Knowledge - 0 Citations

Other information

Authenticus ID: P-00T-W93

DOI: 10.1093/bib/bbz149

Abstract (EN): This work provides a systematic and comprehensive overview of available resources for the molecular-scale modelling of the translation process through agent-based modelling. The case study is the translation in Saccharomyces cerevisiae, one of the most studied yeasts. The data curation workflow encompassed structural information about the yeast (i.e. the simulation environment), and the proteins, ribonucleic acids and other types of molecules involved in the process (i.e. the agents). Moreover, it covers the main process events, such as diffusion (i.e. motion of molecules in the environment) and collision efficiency (i.e. interaction between molecules). Data previously determined by wet-lab techniques were preferred, resorting to computational predictions/extrapolations only when strictly necessary. The computational modelling of the translation processes is of added industrial interest, since it may bring forward knowledge on how to control such phenomena and enhance the production of proteins of interest in a faster and more efficient manner.

Language: English

Type (Professor's evaluation): Scientific

No. of pages: 13