PHASAGE
PhasAGE – Excellence Hub on Phase Transitions in Aging and Age-Related Disorders
PUBLICATIONS
A list of references from members of the consortium and other scientific communities to support research in the field of phase separation in aging and disease.
- Federica Quaglia, Bálint Mészáros et al. “DisProt in 2022: improved quality and accessibility of protein intrinsic disorder annotation” Nucleic Acids Research. 2021. gkab1082
- Andras Hatos, Alexander Miguel Monzon, Silvio C E Tosatto, Damiano Piovesan, Monika Fuxreiter. “FuzDB: a new phase in understanding fuzzy interactions.” 2021 Nov gkab1060
- Vendruscolo M, Fuxreiter M. “Sequence Determinants of the Aggregation of Proteins Within Condensates Generated by Liquid-liquid Phase Separation.” J Mol Biol. 2021. doi: 10.1016/j.jmb.2021.167201
- Korkmazhan E, Tompa P, Dunn AR. “The role of ordered cooperative assembly in biomolecular condensates.” Nat Rev Mol Cell Biol. 2021 Aug 4
- Parisi G, Palopoli N, Tosatto SCE, Fornasari MS, Tompa P. “Protein” no longer means what it used to.” Curr Res Struct Biol. 2021 Jul 7;3:146-152
- Díaz-Caballero M, Navarro S, Ventura S. “Functionalized Prion-Inspired Amyloids for Biosensor Applications.” Biomacromolecules. 2021 Jul 12;22(7):2822-2833
- Quaglia F, Lazar T, Hatos A, Tompa P, Piovesan D, Tosatto SCE. “Exploring Curated Conformational Ensembles of Intrinsically Disordered Proteins in the Protein Ensemble Database.” Curr Protoc. 2021 Jul;1(7):e192
- Pintado C, Santos J, Iglesias V, Ventura S. “SolupHred: a server to predict the pH-dependent aggregation of intrinsically disordered proteins.” Bioinformatics. 2021 Jul 12;37(11):1602-1603
- Fuxreiter M, Vendruscolo M. “Generic nature of the condensed states of proteins.” Nat Cell Biol. 2021 Jun;23(6):587-594.
- Santos J, Gracia P, Navarro S, Peña-Díaz S, Pujols J, Cremades N, Pallarès I, Ventura S. “α-Helical peptidic scaffolds to target α-synuclein toxic species with nanomolar affinity.” Nat Commun. 2021 Jun 18;12(1):3752
- Necci M, Piovesan D; CAID Predictors; DisProt Curators, Tosatto SCE. “Critical assessment of protein intrinsic disorder prediction.” Nat Methods. 2021 May;18(5):472-481
- Pinheiro F, Santos J, Ventura S. “AlphaFold and the amyloid landscape.” J Mol Biol. 2021 May 21:167059
- Monzon AM, Bonato P, Necci M, Tosatto SCE, Piovesan D. “FLIPPER: Predicting and Characterizing Linear Interacting Peptides in the Protein Data Bank.” J Mol Biol. 2021 Apr 30;433(9):166900
- Pakravan D, Michiels E, Bratek-Skicki A, De Decker M, Van Lindt J, Alsteens D, Derclaye S, Van Damme P, Schymkowitz J, Rousseau F, Tompa P, Van Den Bosch L. “Liquid-Liquid Phase Separation Enhances TDP-43 LCD Aggregation but Delays Seeded Aggregation.” Biomolecules. 2021 Apr 8;11(4):548
- Fuxreiter M. “Spot in a drop: mutations in aberrant condensates.” Nat Rev Mol Cell Biol. 2021 Mar;22(3):162-163
- Farahi N, Lazar T, Wodak SJ, Tompa P, Pancsa R. “Integration of Data from Liquid-Liquid Phase Separation Databases Highlights Concentration and Dosage Sensitivity of LLPS Drivers.” Int J Mol Sci. 2021 Mar 16;22(6):3017
- Piovesan D, Necci M, Escobedo N, Monzon AM, Hatos A, Mičetić I, Quaglia F, Paladin L, Ramasamy P, Dosztányi Z, Vranken WF, Davey NE, Parisi G, Fuxreiter M, Tosatto SCE. “MobiDB: intrinsically disordered proteins in 2021.” Nucleic Acids Res. 2021 Jan 8;49(D1): D361-D367
- Van Lindt J, Bratek-Skicki A, Nguyen PN, Pakravan D, Durán-Armenta LF, Tantos A, Pancsa R, Van Den Bosch L, Maes D, Tompa P. “A generic approach to study the kinetics of liquid-liquid phase separation under near-native conditions.” Commun Biol. 2021 Jan 19;4(1):77
- Hardenberg M, Horvath A, Ambrus V, Fuxreiter M, Vendruscolo M. “Widespread occurrence of the droplet state of proteins in the human proteome.” Proc Natl Acad Sci U S A. 2020 Dec 29;117(52):33254-33262
- Bratek-Skicki A, Pancsa R, Meszaros B, Van Lindt J, Tompa P. “A guide to the regulation of the formation of biomolecular condensates.” FEBS J. 2020 May;287(10):1924-1935
- Barroso-Vilares M, Macedo JC, Reis M, Warren JD, Compton D, Logarinho E. “Small-molecule inhibition of aging-associated chromosomal instability delays cellular senescence.” EMBO Rep. 2020 May 6;21(5):e49248
- Marton Miskei, Csaba Antal and Monika Fuxreiter “FuzDB: database of fuzzy complexes, a tool to develop stochastic structure-function relationships for protein complexes and higher-order assemblies.” Nucleic Acids Research. 2017 45(D1): D228-D235.
ACKNOWLEDGEMENT – INFORMATION ON EU FUNDING
Please use the following statement to acknowledge the PhasAGE participation in collaborative publications:
“This [insert type of result] is part of a project that has received funding from the European Union’s Horizon 2020 research and innovation programme under grant agreement No 952334.”