Excellence Hub on Phase Transitions in Aging and Age-Related Disorders

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Detailed Dissemination, Communication and Outreach Plan (DCOP)

Detailed Dissemination Communication and Outreach Plan DCOP

ESS1 and ESS2 plan
Report on computational analysis of protein phase separations
Report on publications on PhasAGE topics in high impact journals by the coordinating institution

Introduction in the Continuous reporting tool on the Funding and tenders portal of peerreviewed publications on intrinsically disordered proteinsphase separation of the coordinating entity during the three years preceding the start date of the project

PhasAGE Management Handbook

PhasAGE Wikipedia
Launch of the PhaseAGE HUB
Launch of the PhasAGE website and links to social media

Launch of thePhasAGE website and links to social media

Implementation of a central PhasAGE HelpDesk
Communication Toolkit

Publications

The evolution and polymorphism of mono-amino acid repeats in androgen receptor and their regulatory role in health and disease

Auteurs: Attila Meszaros, Junaid Ahmed, Giorgio Russo, Peter Tompa, Tamas Lazar
Publié dans: Frontiers in Medicine, 2022, ISSN 2296-858X
Éditeur: Frontiers
DOI: 10.3389/fmed.2022.1019803

DispHScan: A Multi-Sequence Web Tool for Predicting Protein Disorder as a Function of pH

Auteurs: Carlos Pintado-Grima, Valentín Iglesias, Jaime Santos, Vladimir N Uversky, Salvador Ventura
Publié dans: Biomolecules, 2021, ISSN 2218-273X
Éditeur: MDPI
DOI: 10.3390/biom11111596

Degron masking outlines degronons, co-degrading functional modules in the proteome

Auteurs: Mainak Guharoy, Tamas Lazar, Mauricio Macossay-Castillo, Peter Tompa
Publié dans: Communications Biology, 2022, ISSN 2399-3642
Éditeur: Nature
DOI: 10.1038/s42003-022-03391-z

Advances in Nucleotide Repeat Expansion Diseases: Transcription Gets in Phase

Auteurs: Ana S. Figueiredo, Joana R. Loureiro, Sandra Macedo-Ribeiro, Isabel Silveira
Publié dans: Cells, 2023, ISSN 2073-4409
Éditeur: MDPI
DOI: 10.3390/cells12060826

Cryo-EM structure of hnRNPDL-2 fibrils, a functional amyloid associated with limb-girdle muscular dystrophy D3

Auteurs: Javier Garcia-Pardo, Andrea Bartolomé-Nafría, Antonio Chaves-Sanjuan, Marcos Gil-Garcia, Cristina Visentin, Martino Bolognesi, Stefano Ricagno, Salvador Ventura
Publié dans: Nature Communications, 2023, ISSN 2041-1723
Éditeur: Nature Publishing Group
DOI: 10.1038/s41467-023-35854-0

Molecular Determinants of Selectivity in Disordered Complexes May Shed Light on Specificity in Protein Condensates

Auteurs: Alexander Miguel Monzon, Damiano Piovesan, Monika Fuxreiter
Publié dans: Biomolecules, 2022, ISSN 2218-273X
Éditeur: MDPI
DOI: 10.3390/biom12010092

Databases for intrinsically disordered proteins

Auteurs: Damiano Piovesan; Alexander Miguel Monzon; Federica Quaglia; Silvio C. E. Tosatto
Publié dans: Acta Crystallographica Section D, Numéro 1, 2022, ISSN 0907-4449
Éditeur: Blackwell Publishing Inc.
DOI: 10.1107/s2059798321012109

Computational methods to predict protein aggregation

Auteurs: Susanna Navarro, Salvador Ventura
Publié dans: Current Opinion in Structural Biology, 2022, ISSN 1879-033X
Éditeur: Elsevier
DOI: 10.1016/j.sbi.2022.102343

Biological colloids: Unique properties of membraneless organelles in the cell

Auteurs: Anna Bratek-Skicki, Margot Van Nerom, Dominique Maes, Peter Tompa
Publié dans: Advances in Colloid and Interface Science, 2022, ISSN 1873-3727
Éditeur: ELSEVIER
DOI: 10.1016/j.cis.2022.102777

CARs-DB: A Database of Cryptic Amyloidogenic Regions in Intrinsically Disordered Proteins

Auteurs: Carlos Pintado-Grima; Oriol Bárcenas; Zoe Manglano-Artuñedo; Rita Vilaça; Sandra Macedo-Ribeiro; Irantzu Pallarès; Jaime Santos; Salvador Ventura
Publié dans: Frontiers in Molecular Biosciences, Numéro 1, 2022, ISSN 2296-889X
Éditeur: Frontiers
DOI: 10.3389/fmolb.2022.882160

SARS‐CoV‐2 variants preferentially emerge at intrinsically disordered protein sites helping immune evasion

Auteurs: Federica Quaglia; Edoardo Salladini; Marco Carraro; Giovanni Minervini; Silvio C.E. Tosatto; Philippe Le Mercier
Publié dans: The FEBS Journal, Numéro 1, 2022, ISSN 1742-464X
Éditeur: Blackwell Publishing Inc.
DOI: 10.1111/febs.16379

In-Silico Analysis of pH-Dependent Liquid-Liquid Phase Separation in Intrinsically Disordered Proteins

Auteurs: Carlos Pintado-Grima, Oriol Bárcenas, Salvador Ventura
Publié dans: Biomolecules, 2022, ISSN 2218-273X
Éditeur: MDPI
DOI: 10.3390/biom12070974

A Review of Fifteen Years Developing Computational Tools to Study Protein Aggregation

Auteurs: Carlos Pintado-Grima; Oriol Bárcenas; Andrea Bartolomé-Nafría; Marc Fornt-Suñé; Valentín Iglesias; Javier Garcia-Pardo; Salvador Ventura
Publié dans: Biophysica, Numéro 1, 2023, ISSN 2673-4125
Éditeur: MDPI
DOI: 10.3390/biophysica3010001

Decoding the role of coiled-coil motifs in human prion-like proteins

Auteurs: Molood Behbahanipour, Javier García-Pardo, Salvador Ventura
Publié dans: Prion, 2021, ISSN 1933-690X
Éditeur: Taylor & Francis
DOI: 10.1080/19336896.2021.1961569

F/YGG-motif is an intrinsically disordered nucleic-acid binding motif

Auteurs: Joris Van Lindt, Tamas Lazar, Donya Pakravan , Manon Demulder, Attila Meszaros , Ludo Van Den Bosch, Dominique Maes, Peter Tompa
Publié dans: RNA Biology, 2022, ISSN 1555-8584
Éditeur: Taylor and Francis
DOI: 10.1080/15476286.2022.2066336

The Repeating, Modular Architecture of the HtrA Proteases

Auteurs: Matthew Merski, Sandra Macedo-Ribeiro, Rafal M. Wieczorek, Maria W. Górna
Publié dans: Biomolecules, 2022, ISSN 2218-273X
Éditeur: MDPI
DOI: 10.3390/biom12060793

Intrinsic protein disorder uncouples affinity from binding specificity

Auteurs: Tamas Lazar, Agnes Tantos, Peter Tompa, Eva Schad
Publié dans: Protein Science, 2022, ISSN 1469-896X
Éditeur: Wiley
DOI: 10.1002/pro.4455

Exploring cryptic amyloidogenic regions in prion-like proteins from plants

Auteurs: Carlos Pintado-Grima, Jaime Santos, Valentín Iglesias, Zoe Manglano-Artuñedo, Irantzu Pallarès, Salvador Ventura
Publié dans: Frontiers in Plant Science, 2023, ISSN 1664-462X
Éditeur: Frontiers Media S. A.
DOI: 10.3389/fpls.2022.1060410

ECO: the Evidence and Conclusion Ontology, an update for 2022

Auteurs: Suvarna Nadendla, Rebecca Jackson, James Munro, Federica Quaglia, Bálint Mészáros, Dustin Olley, Elizabeth T Hobbs, Stephen M Goralski, Marcus Chibucos, Christopher John Mungall, Silvio C E Tosatto, Ivan Erill, Michelle G Giglio
Publié dans: Nucleic Acids Research, 2022, Page(s) D1515–D1521, ISSN 1362-4962
Éditeur: Oxford University Press
DOI: 10.1093/nar/gkab1025

FuzDB: a new phase in understanding fuzzy interactions

Auteurs: Andras Hatos, Alexander Miguel Monzon, Silvio C E Tosatto, Damiano Piovesan, Monika Fuxreiter
Publié dans: Nucleic Acids Research, 2022, Page(s) D509–D517, ISSN 1362-4962
Éditeur: Oxford University Press
DOI: 10.1093/nar/gkab1060

A3D database: structure-based predictions of protein aggregation for the human proteome

Auteurs: Aleksandra E Badaczewska-Dawid, Javier Garcia-Pardo, Aleksander Kuriata, Jordi Pujols, Salvador Ventura, Sebastian Kmiecik
Publié dans: Bioinformatics, 2022, Page(s) 3121–3123, ISSN 1367-4811
Éditeur: Oxford University Press
DOI: 10.1093/bioinformatics/btac215

DisProt in 2022: improved quality and accessibility of protein intrinsic disorder annotation.

Auteurs: Federica Quaglia; Federica Quaglia; Bálint Mészáros; Edoardo Salladini; András Hatos; Rita Pancsa; Lucía B. Chemes; Mátyás Pajkos; Tamas Lazar; Tamas Lazar; Samuel Peña-Díaz; Jaime Santos; Veronika Ács; Nazanin Farahi; Nazanin Farahi; Erzsébet Fichó; Maria Cristina Aspromonte; Claudio Bassot; Anastasia Chasapi; Norman E. Davey; Radoslav Davidovic; László Dobson; Arne Elofsson; Gábor
Publié dans: Nucleic Acids Research, Numéro 1, 2021, ISSN 0305-1048
Éditeur: Oxford University Press
DOI: 10.1093/nar/gkab1082

Development of Small Molecules Targeting α-Synuclein Aggregation: A Promising Strategy to Treat Parkinson’s Disease

Auteurs: Samuel Peña-Díaz,Javier García-Pardo, Salvador Ventura
Publié dans: Pharmaceutics, 2023, ISSN 1999-4923
Éditeur: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/pharmaceutics15030839

A fish herpesvirus highlights functional diversities among Zα domains related to phase separation induction and A-to-Z conversion

Auteurs: Mamadou Amadou Diallo; Sébastien Pirotte; Yunlong Hu; Léa Morvan; Krzysztof Rakus; Nicolás M Suárez; Lee PoTsang; Hisao Saneyoshi; Yan Xu; Andrew J Davison; Peter Tompa; Joel L Sussman; Alain Vanderplasschen
Publié dans: Nucleic Acids Research, Numéro 1, 2023, Page(s) 806–830, ISSN 1362-4962
Éditeur: Oxford University Press
DOI: 10.1093/nar/gkac761

SGnn: A Web Server for the Prediction of Prion-Like Domains Recruitment to Stress Granules Upon Heat Stress

Auteurs: Valentín Iglesias, Jaime Santos, Juan Santos-Suárez, Carlos Pintado-Grima, Salvador Ventura
Publié dans: Frontiers in Molecular Biosciences, 2021, ISSN 2296-889X
Éditeur: Frontiers
DOI: 10.3389/fmolb.2021.718301

A Novel Tandem-Tag Purification Strategy for Challenging Disordered Proteins

Auteurs: Attila Mészáros, Kevin Muwonge, Steven Janvier, Junaid Ahmed, Peter Tompa
Publié dans: Biomolecules, 2022, ISSN 2218-273X
Éditeur: MDPI
DOI: 10.3390/biom12111566

A Robust Assay to Monitor Ataxin-3 Amyloid Fibril Assembly

Auteurs: Francisco Figueiredo; Mónica Lopes-Marques; Bruno Almeida; Nena Matscheko; Pedro M. Martins; Alexandra Silva; Sandra Macedo-Ribeiro
Publié dans: Cells, Numéro Volume 11; Numéro 12; Pages: 1969, 2022, ISSN 2073-4409
Éditeur: MDPI
DOI: 10.3390/cells11121969

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