Rezultaty
Collection of TRP datasets
Report on the state-of-the-art of TRP-related HMMs and TRP covariance analysis.Report on the function of new TRP families.
Report on the function of new TRP families
Report on examples of TRP evolution through internal duplication of coding sequence and repeat units recycled by evolution in globular structures.Report on examples of TRP evolution through internal duplication of coding sequence and repeat units recycled by evolution in globular structures
Report on mapping and analysis of exon boundaries on TRPs, comparison with their modularity, and TRP amino acid vs DNA sequence variability.Report on mapping and analysis of exon boundaries on TRPs comparison with their modularity and TRP amino acid vs DNA sequence variability
Symposia/Remote Symposia Period 2Symposia Period 2. Europe: 2 x All-Hands Meeting, 1 x Dissemination Training School, 1 x Final Dissemination meeting. Latin America: 2 x Annual Latin America Visit.
TRP function, localization and organism distribution enrichment analysis.TRP function localization and organism distribution enrichment analysis
Symposia/Remote Symposia Period 1Symposia Period 1 Europe 2 x AllHands Meeting 1 x Dissemination Training School Latin America 2 x Annual Latin America Visit
Report about TRP roles in PPI networks and interaction with RNA/DNA molecules and role of TRPs in host interactions with viruses and pathogens.Report about TRP roles in PPI networks and interaction with RNADNA molecules and role of TRPs in host interactions with viruses and pathogens
Report on TRP disorder, low-complexity, transmembrane domain overlap and examples of cooperative TRP folding.Report on TRP disorder lowcomplexity transmembrane domain overlap and examples of cooperative TRP folding
Report on TRP sequence and structural classification as well as sequence and structural clustering of the TRP universe.Cookbook for TRP annotation best-practices. Report about data format gold-standard, technical and implementation best-practices for TRP web resources.
Cookbook for TRP annotation bestpractices Report about data format goldstandard technical and implementation bestpractices for TRP web resources
Report on SLIMs in TRPs.Report on SLIMs in TRPs
Software for sequence- and structure-based pairwise TRP alignment.
Cross-link of generated TRP data into core data resources (e.g. InterPro) and related resources.Platform and metrics for TRP tools benchmarking, including consensus detection of sequence- and structure-based methods
Platform and metrics for TRP tools benchmarking, including consensus detection of sequence- and structure-based methods.
Deployment of TRP database APIs.Software for automatic TRP region and unit annotation
Software for the identification of homologous TRPs from sequence databases.
Integration of novel classification in TRP databases.
Curation of Pfam TRP-related HMMs.
Software for modeling TRP regions by homology
Publikacje
Autorzy:
Lisanna Paladin; Mathieu Schaeffer; Pascale Gaudet; Monique Zahn-Zabal; Pierre-André Michel; Damiano Piovesan; Silvio C. E. Tosatto; Amos Marc Bairoch
Opublikowane w:
Bioinformatics, Numer 8, 2020, ISSN 1367-4803
Wydawca:
Oxford University Press
DOI:
10.1093/bioinformatics/btaa055
Autorzy:
Del Conte A.; Monzon A. M.; Clementel D.; Camagni G. F.; Minervini G.; Tosatto S. C. E.; Piovesan D.
Opublikowane w:
Bioinformatics, Numer 16, 2023, ISSN 1367-4803
Wydawca:
Oxford University Press
DOI:
10.1093/bioinformatics/btad260
Autorzy:
M. Leticia Ferrelli; Matías L. Pidre; Ruben García-Domínguez; Lucas N. Alberca; DMaría del Saz-Navarro; Carlos Santana-Molina; Damien P. Devos
Opublikowane w:
Journal of Structural Biology, Numer 8, 2023, ISSN 1047-8477
Wydawca:
Academic Press
DOI:
10.1016/j.jsb.2023.107987
Autorzy:
Martina Bevilacqua, Lisanna Paladin, Silvio C E Tosatto, Damiano Piovesan
Opublikowane w:
Bioinformatics, 2021, ISSN 1367-4803
Wydawca:
Oxford University Press
DOI:
10.1093/bioinformatics/btab764
Autorzy:
Matteo Delucchi, Elke Schaper, Oxana Sachenkova, Arne Elofsson and Maria Anisimova
Opublikowane w:
Genes, 2020, ISSN 2073-4425
Wydawca:
Multidisciplinary Digital Publishing Institute (MDPI)
DOI:
10.3390/genes11040407
Autorzy:
Gustavo Parisi; Nicolas Palopoli; Silvio C. E. Tosatto; María Silvina Fornasari; Peter Tompa
Opublikowane w:
Current Research in Structural Biology, Numer 8, 2021, ISSN 2665-928X
Wydawca:
Elsevier
DOI:
10.1016/j.crstbi.2021.06.002
Autorzy:
Ian Walsh, Dmytro Fishman, Dario Garcia-Gasulla, Tiina Titma, Gianluca Pollastri, ELIXIR Machine Learning Focus Group, Jennifer Harrow, Fotis E. Psomopoulos & Silvio C. E. Tosatto
Opublikowane w:
Nature Methods, 2021, ISSN 1548-7091
Wydawca:
Nature Publishing Group
DOI:
10.1038/s41592-021-01205-4
Autorzy:
Alexander Miguel Monzon; Marco Necci; Federica Quaglia; Ian Walsh; Giuseppe Zanotti; Damiano Piovesan; Silvio C. E. Tosatto
Opublikowane w:
International Journal of Molecular Sciences, Numer 8, 2020, ISSN 1422-0067
Wydawca:
Multidisciplinary Digital Publishing Institute (MDPI)
DOI:
10.1101/2020.02.17.952028
Autorzy:
Damiano Clementel, Alessio Del Conte, Alexander Miguel Monzon, Giorgia F Camagni, Giovanni Minervini, Damiano Piovesan, Silvio C E Tosatto
Opublikowane w:
Nucleic Acids Research, 2022, ISSN 0305-1048
Wydawca:
Oxford University Press
DOI:
10.1093/nar/gkac365
Autorzy:
Manuel, Bezerra-Brandao; Ronaldo Romario, Tunque Cahui; Layla, Hirsh
Opublikowane w:
Journal of Structural Biology, Numer 6, 2023, ISSN 1047-8477
Wydawca:
Academic Press
DOI:
10.1016/j.jsb.2023.108033
Autorzy:
Piovesan, Damiano; Zago, Davide; Joshi, Parnal; Kaluza, M. Clara De Paolis; Monzon, Alexander Miguel; Reade, Walter; Friedberg, Iddo; Radivojac, Predrag; Tosatto, Silvio C. E.
Opublikowane w:
Bioinformatics Advances, Numer 16, 2024, ISSN 2635-0041
Wydawca:
Oxford University Press
DOI:
10.1093/bioadv/vbae043
Autorzy:
Erdozain Bagolin, Sofía Agostina; Barrionuevo, Emilia Mercedes; Ripoll, Lucas; Mier, Pablo; Andrade Navarro, Miguel A.
Opublikowane w:
Journal of Structural Biology, Numer 11, 2023, ISSN 1047-8477
Wydawca:
Academic Press
DOI:
10.1016/j.jsb.2023.107962
Autorzy:
Vladimir Perovic; Jeremy Y Leclercq; Neven Sumonja; Francois Richard; Francois Richard; Nevena Veljkovic; Andrey V. Kajava
Opublikowane w:
Bioinformatics, Numer 8, 2020, ISSN 1367-4803
Wydawca:
Oxford University Press
DOI:
10.1093/bioinformatics/btaa121
Autorzy:
Lisanna Paladin; Martina Bevilacqua; Sara Errigo; Damiano Piovesan; Ivan Mičetić; Marco Necci; Alexander Miguel Monzon; María Laura Fabre; José Luis López; Juliet F. Nilsson; Javier Rios; Pablo Lorenzano Menna; Maia Diana Eliana Cabrera; Martin Gonzalez Buitron; Mariane Gonçalves Kulik; Sebastian Fernandez-Alberti; María Silvina Fornasari; Gustavo Parisi; Antonio Lagares; Layla Hirsh; Migue
Opublikowane w:
Nucleic Acids Research, Numer 4, 2021, ISSN 0305-1048
Wydawca:
Oxford University Press
DOI:
10.1093/nar/gkaa1097
Autorzy:
Del Conte A.; Mehdiabadi M.; Bouhraoua A.; Monzon A. M.; Tosatto S. C. E.; Piovesan D.
Opublikowane w:
Proteins: Structure, Function and Bioinformatics, Numer 15, 2023, ISSN 0887-3585
Wydawca:
Wiley-Liss Inc
DOI:
10.1002/prot.26582
Autorzy:
Claudio Bassot, Arne Elofsson
Opublikowane w:
PLOS Computational Biology, 2021, ISSN 1553-734X
Wydawca:
Public Library of Science
DOI:
10.1371/journal.pcbi.1008798
Autorzy:
Agustín Ormazábal; Matías Sebastián Carletti; Tadeo Enrique Saldaño; Martín Gonzalez-Buitron; Julia Marchetti; Nicolas Palopoli; Alex Bateman
Opublikowane w:
PLoS ONE, Numer 11, 2023, ISSN 1932-6203
Wydawca:
Public Library of Science
DOI:
10.1371/journal.pone.0290890
Autorzy:
Lisanna Paladin, Marco Necci, Damiano Piovesan, Pablo Mier, Miguel A.Andrade-Navarro, Silvio C.E.Tosatto
Opublikowane w:
Journal of Structural Biology, 2022, ISSN 1047-8477
Wydawca:
Academic Press
DOI:
10.1016/j.jsb.2020.107608
Autorzy:
Max A. Verbiest; Oxana Lundström; Feifei Xia; Michael Baudis; Tugce Bilgin Sonay; Maria Anisimova
Opublikowane w:
Scientific Reports, Numer 18, 2024, ISSN 2045-2322
Wydawca:
Nature Publishing Group
DOI:
10.1101/2023.11.29.569189
Autorzy:
Max A. Verbiest, Matteo Delucchi, Tugce Bilgin Sonay and Maria Anisimova
Opublikowane w:
Frontiers in Bioinformatics, 2021, ISSN 2673-7647
Wydawca:
Frontiers Media
DOI:
10.3389/fbinf.2021.685844
Autorzy:
András Hatos, Federica Quaglia, Damiano Piovesan, Silvio C E Tosatto
Opublikowane w:
Database, 2021, ISSN 1758-0463
Wydawca:
Oxford University Press
DOI:
10.1093/database/baab019
Autorzy:
Pablo Mier, Miguel A. Andrade-Navarro
Opublikowane w:
BMC Ecology and Evolution, 2020, ISSN 2730-7182
Wydawca:
Springer Nature
DOI:
10.1186/s12862-020-01626-3
Autorzy:
Mohamed Kamel, Kristina Kastano, Pablo Mier, Miguel A. Andrade
Opublikowane w:
Journal of Molecular Biology, 2021, ISSN 0022-2836
Wydawca:
Academic Press
DOI:
10.1016/j.jmb.2021.166895
Autorzy:
Hamidreza Ghafouri; Tamas Lazar; Alessio Del Conte; Luiggi G Tenorio Ku; Maria C Aspromonte; Pau Bernadó; Belén Chaves-Arquero; Lucia Beatriz Chemes; Damiano Clementel; Tiago N Cordeiro; Carlos A Elena-Real; Michael Feig; Isabella C Felli; Carlo Ferrari; Julie D Forman-Kay; Tiago Gomes; Frank Gondelaud; Claudiu C Gradinaru; Tâp Ha-Duong; Teresa Head-Gordon; Pétur O Heidarsson; Giacomo Janson
Opublikowane w:
Nucleic Acids Research, Numer 16, 2024, ISSN 0305-1048
Wydawca:
Oxford University Press
DOI:
10.1093/nar/gkad947
Autorzy:
Matteo Delucchi; Paulina Näf; Spencer Bliven; Maria Anisimova
Opublikowane w:
Frontiers in Bioinformatics, Numer 5, 2021, ISSN 2673-7647
Wydawca:
Frontiers Media
DOI:
10.21256/zhaw-22764
Autorzy:
Jaina Mistry; Sara Chuguransky; Lowri Williams; Matloob Qureshi; Gustavo A. Salazar; Erik L. L. Sonnhammer; Silvio C. E. Tosatto; Lisanna Paladin; Shriya Raj; Lorna Richardson; Robert D. Finn; Alex Bateman
Opublikowane w:
Nucleic Acids Research, Numer 5, 2020, ISSN 0305-1048
Wydawca:
Oxford University Press
DOI:
10.1093/nar/gkaa913
Autorzy:
Monzon, Alexander Miguel; Arrías, Paula Nazarena; Elofsson, Arne; Mier, Pablo; Andrade-Navarro, Miguel A; Bevilacqua, Martina; Clementel, Damiano; Bateman, Alex; Hirsh, Layla; Fornasari, Maria Silvina; Parisi, Gustavo; Piovesan, Damiano; Kajava, Andrey V; Tosatto, Silvio C E
Opublikowane w:
Journal of Structural Biology, Numer 5, 2023, ISSN 1047-8477
Wydawca:
Academic Press
DOI:
10.1016/j.jsb.2023.108023
Autorzy:
Federica Quaglia, Rama Balakrishnan, Susan M Bello, Nicole Vasilevsky
Opublikowane w:
Database, 2022, ISSN 1758-0463
Wydawca:
Oxford University Press
DOI:
10.1093/database/baac027
Autorzy:
Maria Cristina Aspromonte; Maria Victoria Nugnes; Federica Quaglia; Adel Bouharoua; Vasileios Sagris; Vasilis J Promponas; Anastasia Chasapi; Erzsébet Fichó; Galo E Balatti; Gustavo Parisi; Martín González Buitrón; Gabor Erdos; Matyas Pajkos; Zsuzsanna Dosztányi; Laszlo Dobson; Alessio Del Conte; Damiano Clementel; Edoardo Salladini; Emanuela Leonardi; Fatemeh Kordevani; Hamidreza Ghafouri;
Opublikowane w:
Nucleic Acids Research, Numer 18, 2024, ISSN 0305-1048
Wydawca:
Oxford University Press
DOI:
10.1093/nar/gkad928
Autorzy:
Patryk Jarnot; Joanna Ziemska-Legiecka; László Dobson; Matthew Merski; Pablo Mier; Miguel A. Andrade-Navarro; John M. Hancock; Zsuzsanna Dosztányi; Lisanna Paladin; Marco Necci; Damiano Piovesan; Silvio C. E. Tosatto; Vasilis J. Promponas; Marcin Grynberg; Aleksandra Gruca
Opublikowane w:
Nucleic Acids Research, Numer 7, 2020, ISSN 0305-1048
Wydawca:
Oxford University Press
DOI:
10.1093/nar/gkaa339
Autorzy:
Max Verbiest; Mikhail Maksimov; Ye Jin; Maria Anisimova; Melissa Gymrek; Tugce Bilgin Sonay
Opublikowane w:
Journal of Evolutionary Biology, Numer 18, 2023, ISSN 1010-061X
Wydawca:
Blackwell Publishing Inc.
DOI:
10.1111/jeb.14106
Autorzy:
Federica Quaglia
Opublikowane w:
Abstract booklet of the 14th Annual Biocuration Conference (virtual), including invited speakers talks and poster session presentations, 2021
Wydawca:
Zenodo
DOI:
10.5281/zenodo.5570276
Autorzy:
Nahuel Escobedo, Ronaldo Romario Tunque Cahui, Gastón Caruso, Emilio García Ríos, Layla Hirsh, Alexander Miguel Monzon, Gustavo Parisi, VNicolas Palopoli
Opublikowane w:
bioRxiv, 2022, ISSN 2692-8205
Wydawca:
bioRxiv
DOI:
10.1101/2022.02.15.480082
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