Non-globular proteins in the era of Machine Learning COST Action CA21160 PUBLICATIONS 2024 Del Conte, A., et al., RING 4.0: faster residue interaction networks with novel interaction types across over 35,000 different chemical structures. Nucleic Adic Res, 2024. 52(W1): W306-W312 Mozaffari, S., et al., STRPsearch: fast detection of structured tandem repeat proteins. bioRxiv (Cold Spring Harbor Laboratory), 2024. Attafi, O. A., et al., A DOME Registry: Implementing community-wide recommendations for reporting supervised machine learning in biology.arXiv (Cornell University), 2024 Piovesan, D., et al. MOBIDB in 2025: integrating ensemble properties and function annotations for intrinsically disordered proteins. Nucleic Acids Res 2024 Piovesan, D., et al., CAFA-evaluator: a Python tool for benchmarking ontological classification methods. Bioinform Adv., 2024. 14;4(1):vbae043 Mac Donagh J., et al., Structured Tandem Repeats in Protein Interactions. Int. J. Mol. Sci.. 2024; 25(5):2994. Clementel D., et al., RepeatsDB in 2025: expanding annotations of structured tandem repeats proteins on AlphaFoldDB, Nucleic Acids Res, 2024. Gavalda-Garcia J., et al., bio2Byte Tools deployment as a Python package and Galaxy tool to predict protein biophysical properties. Bioinformatics, 2024: 40(9) Bondarev SA, et al., AmyloComp: A Bioinformatic Tool for Prediction of Amyloid Co-aggregation. J Mol Biol, 2024 Bartolomé-Nafría, A., García-Pardo, J., & Ventura, S. Mutations in human prion-like domains: pathogenic but not always amyloidogenic. Prion, 2024 2023 Escobedo, N., et al., Combining Protein Conformational Diversity and Phylogenetic Information Using CoDNaS and CoDNaS-Q. Curr Protoc, 2023. 3(5): p. e764 Del Conte, A., et al., CAID prediction portal: a comprehensive service for predicting intrinsic disorder and binding regions in proteins. Nucleic Acids Res, 2023. 51(W1): p. W62-W69 Arrias, P.N., et al., The repetitive structure of DNA clamps: An overlooked protein tandem repeat. J Struct Biol, 2023. 215(3): p. 108001 Del Conte, A., et al., Critical assessment of protein intrinsic disorder prediction (CAID) – Results of round 2. Proteins, 2023 Monzon, A.M., et al., A STRP-ed definition of Structured Tandem Repeats in Proteins. J Struct Biol, 2023: p. 108023 Garcia-Pardo, J., et al. A3DyDB: exploring structural aggregation propensities in the yeast proteome. Microb Cell Fact, 2023. 22, p186 Ghafouri, H., et. al, PED in 2024: improving the community deposition of structural ensembles for intrinsically disordered proteins. Nucleic Acids Res, 2023 Aspromonte M.C., et al. DisProt in 2024: improving function annotation of intrinsically disordered proteins. Nucleic Acids Res, 2023 Garcia-Pardo J., Ventura S. Cryo-EM structures of functional and pathological amyloid ribonucleoprotein assemblies. Trends Biochem Sci. 2023 Vasović LM, et al., Intrinsically disordered proteins and liquid-liquid phase separation in SARS-CoV-2 interactomes. J Cell Biochem, 2023 Mier P, Andrade-Navarro MA. The nucleotide landscape of polyXY regions. Comput Struct Biotechnol J., 2023
