Aggregating amyloid resources : A comprehensive review of databases on amyloid-like aggregation
Iglesias, Valentin (Medical University of Bialystok)
Chilimoniuk, Jaroslaw (Medical University of Bialystok)
Pintado-Grima, Carlos (Universitat Autònoma de Barcelona. Departament de Bioquímica i de Biologia Molecular)
Bárcenas, Oriol (Universitat Autònoma de Barcelona. Departament de Bioquímica i de Biologia Molecular)
Ventura, Salvador (Parc Taulí Hospital Universitari. Institut d'Investigació i Innovació Parc Taulí (I3PT))
Burdukiewicz, Michał (Vilnius University (Lituània))

Date:	2024
Abstract:	Protein aggregation is responsible for several degenerative conditions in humans, and it is also a bottleneck in industrial protein production and storage of biotherapeutics. Bioinformatics tools have been developed to predict and redesign protein solubility more efficiently by understanding the underlying principles behind aggregation. As more experimental data become available, dedicated resources for storing, indexing, classifying and consolidating experimental results have emerged. These resources vary in focus, including aggregation-prone regions, 3D patches or protein stretches capable of forming amyloid fibrils. Some of these resources also consider the experimental conditions that cause protein aggregation and how they affect the process. This review article explores how protein aggregation databases have evolved and surveys state-of-the-art resources. We highlight their applications, complementarity and existing limitations. Moreover, we showcase the existing symbiosis between amyloid-related databases and predictive tools. To increase the usefulness of our review, we supplement it with a comprehensive list of present and past amyloid databases: https://biogenies. info/amyloid-database-list/.
Grants:	Agencia Estatal de Investigación PID2022-137963OB-I00 Agència de Gestió d'Ajuts Universitaris i de Recerca 2021/SGR-00635
Rights:	Aquest document està subjecte a una llicència d'ús Creative Commons. Es permet la reproducció total o parcial, la distribució, la comunicació pública de l'obra i la creació d'obres derivades, fins i tot amb finalitats comercials, sempre i quan es reconegui l'autoria de l'obra original.
Language:	Anglès
Document:	Article ; recerca ; Versió publicada
Subject:	Amyloid ; Bioinformatics ; Biotherapeutics ; Database ; Protein aggregation ; Protein solubility ; Prion
Published in:	Computational and Structural Biotechnology Journal, Vol. 23 (October 2024) , p. 4011-4018, ISSN 2001-0370

DOI: 10.1016/j.csbj.2024.10.047
PMID: 39582896

8 p, 1.2 MB

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Research literature > UAB research groups literature > Research Centres and Groups (research output) > Health sciences and biosciences > Parc Taulí Research and Innovation Institute (I3PT
Articles > Research articles
Articles > Published articles