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Toby J. Gibson
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2020 – today
- 2024
- [j30]András Zeke, Toby J. Gibson, Laszlo Dobson
:
Linear motifs regulating protein secretion, sorting and autophagy in Leishmania parasites are diverged with respect to their host equivalents. PLoS Comput. Biol. 20(2) (2024) - 2023
- [j29]Gábor E. Tusnády, András Zeke, Zsofia E. Kalman, Marie Fatoux-Ardore, Sylvie Ricard-Blum
, Toby J. Gibson, Laszlo Dobson
:
LeishMANIAdb: a comparative resource for Leishmania proteins. Database J. Biol. Databases Curation 2023 (2023) - 2022
- [j28]Manjeet Kumar
, Sushama Michael
, Jesús Alvarado Valverde
, Bálint Mészáros
, Hugo Sámano-Sánchez, András Zeke
, Laszlo Dobson
, Tamas Lazar
, Mihkel Örd
, Anurag Nagpal
, Nazanin Farahi
, Melanie Käser, Ramya Kraleti, Norman E. Davey
, Rita Pancsa
, Lucía B. Chemes
, Toby J. Gibson
:
The Eukaryotic Linear Motif resource: 2022 release. Nucleic Acids Res. 50(D1): 497-508 (2022) - [j27]Mihaly Varadi
, Stephen Anyango
, David R. Armstrong
, John M. Berrisford, Preeti Choudhary
, Mandar S. Deshpande
, Nurul Nadzirin, Sreenath Nair
, Lukás Pravda, Ahsan Tanweer
, Bissan Al-Lazikani
, Claudia Andreini
, Geoffrey J. Barton, David Bednar, Karel Berka
, Tom L. Blundell, Kelly Brock, José María Carazo, Jirí Damborský
, Alessia David, Sucharita Dey, Roland L. Dunbrack Jr., Juan Fernández-Recio, Franca Fraternali
, Toby J. Gibson, Manuela Helmer-Citterich, David Hoksza, Thomas A. Hopf, David Jakubec
, Natarajan Kannan, Radoslav Krivák, Manjeet Kumar, Emmanuel D. Levy, Nir London, José Ramón Macías
, Mallur Srivatsan Madhusudhan, Debora S. Marks, Lennart Martens, Stuart A McGowan, Jake E. McGreig, Vivek Modi, R. Gonzalo Parra
, Gerardo Pepe
, Damiano Piovesan, Jaime Prilusky, Valeria Putignano, Leandro G. Radusky, Pathmanaban Ramasamy
, Atilio O. Rausch
, Nathalie Reuter, Luis A. Rodriguez, Nathan J. Rollins, Antonio Rosato
, Pawel Rubach
, Luis Serrano, Gulzar Singh, Petr Skoda
, Carlos Oscar Sánchez Sorzano
, Jan Stourac, Joanna I. Sulkowska, Radka Svobodová Vareková, Natalia Tichshenko, Silvio C. E. Tosatto, Wim F. Vranken, Mark N. Wass, Dandan Xue, Daniel Zaidman, Janet M. Thornton
, Michael J. E. Sternberg
, Christine A. Orengo, Sameer Velankar
:
PDBe-KB: collaboratively defining the biological context of structural data. Nucleic Acids Res. 50(D1): 534-542 (2022) - 2020
- [j26]Nicolas Palopoli, Javier Iserte, Lucía B. Chemes
, Cristina Marino Buslje
, Gustavo D. Parisi, Toby J. Gibson, Norman E. Davey
:
The articles.ELM resource: simplifying access to protein linear motif literature by annotation, text-mining and classification. Database J. Biol. Databases Curation 2020 (2020) - [j25]Mihaly Varadi
, John M. Berrisford, Mandar S. Deshpande
, Sreenath Nair
, Aleksandras Gutmanas
, David R. Armstrong
, Lukás Pravda
, Bissan Al-Lazikani
, Stephen Anyango
, Geoffrey J. Barton, Karel Berka
, Tom L. Blundell, Neera Borkakoti
, Jose M. Dana, Sayoni Das, Sucharita Dey, Patrizio Di Micco, Franca Fraternali
, Toby J. Gibson
, Manuela Helmer-Citterich, David Hoksza, Liang-Chin Huang, Rishabh Jain, Harry Jubb, Christos C. Kannas
, Natarajan Kannan, Jaroslav Koca, Radoslav Krivák, Manjeet Kumar
, Emmanuel D. Levy, Fábio Madeira
, M. S. Madhusudhan, Henry J. Martell
, Stuart A. MacGowan
, Jake E. McGreig
, Saqib Mir, Abhik Mukhopadhyay, Luca Parca
, Typhaine Paysan-Lafosse
, Leandro G. Radusky, António J. M. Ribeiro
, Luis Serrano, Ian Sillitoe, Gulzar Singh, Petr Skoda
, Radka Svobodová Vareková
, Jonathan D. Tyzack
, Alfonso Valencia, Eloy D. Villasclaras-Fernández, Wim F. Vranken, Mark N. Wass, Janet M. Thornton
, Michael J. E. Sternberg
, Christine A. Orengo, Sameer Velankar
:
PDBe-KB: a community-driven resource for structural and functional annotations. Nucleic Acids Res. 48(Database-Issue): D344-D353 (2020)
2010 – 2019
- 2018
- [j24]Marc Gouw
, Sushama Michael
, Hugo Sámano-Sánchez, Manjeet Kumar
, András Zeke
, Benjamin Lang
, Benoit Bely
, Lucía B. Chemes
, Norman E. Davey
, Ziqi Deng
, Francesca Diella, Clara-Marie Gürth
, Ann-Kathrin Huber
, Stefan Kleinsorg, Lara S. Schlegel, Nicolas Palopoli
, Kim Van Roey, Brigitte Altenberg, Attila Reményi
, Holger Dinkel
, Toby J. Gibson
:
The eukaryotic linear motif resource - 2018 update. Nucleic Acids Res. 46(Database-Issue): D428-D434 (2018) - 2016
- [j23]Holger Dinkel
, Kim Van Roey, Sushama Michael
, Manjeet Kumar
, Bora Uyar
, Brigitte Altenberg, Vladislava Milchevskaya, Melanie Schneider
, Helen Kühn, Annika Behrendt, Sophie Luise Dahl
, Victoria Damerell, Sandra Diebel, Sara Kalman, Steffen Klein
, Arne C. Knudsen, Christina Mäder, Sabina Merrill, Angelina Staudt, Vera Thiel, Lukas Welti, Norman E. Davey
, Francesca Diella, Toby J. Gibson
:
ELM 2016 - data update and new functionality of the eukaryotic linear motif resource. Nucleic Acids Res. 44(Database-Issue): 294-300 (2016) - 2014
- [j22]Holger Dinkel
, Kim Van Roey, Sushama Michael
, Norman E. Davey
, Robert J. Weatheritt
, Diana Born, Tobias Speck, Daniel Krüger
, Gleb Grebnev, Marta Kuban, Marta Strumillo
, Bora Uyar
, Aidan Budd, Brigitte Altenberg, Markus Seiler, Lucía B. Chemes
, Juliana Glavina
, Ignacio E. Sánchez, Francesca Diella, Toby J. Gibson
:
The eukaryotic linear motif resource ELM: 10 years and counting. Nucleic Acids Res. 42(Database-Issue): 259-266 (2014) - [c2]Bora Uyar, Toby J. Gibson:
The Roles of Short Linear Motifs in Human Diseases. IWBBIO 2014: 1063 - 2013
- [j21]Kim Van Roey, Sandra E. Orchard
, Samuel Kerrien
, Marine Dumousseau, Sylvie Ricard-Blum
, Henning Hermjakob
, Toby J. Gibson
:
Capturing cooperative interactions with the PSI-MI format. Database J. Biol. Databases Curation 2013 (2013) - 2012
- [j20]Robert J. Weatheritt
, Katja Luck, Evangelia Petsalaki
, Norman E. Davey
, Toby J. Gibson
:
The identification of short linear motif-mediated interfaces within the human interactome. Bioinform. 28(7): 976-982 (2012) - [j19]Holger Dinkel
, Sushama Michael
, Robert J. Weatheritt
, Norman E. Davey
, Kim Van Roey, Brigitte Altenberg, Grischa Toedt, Bora Uyar
, Markus Seiler, Aidan Budd, Lisa Jödicke, Marcel A. Dammert, Christian Schroeter, Maria Hammer, Tobias Schmidt
, Peter Jehl, Caroline McGuigan, Magdalena Dymecka, Claudia Chica
, Katja Luck, Allegra Via, Andrew Chatr-aryamontri, Niall J. Haslam
, Gleb Grebnev, Richard J. Edwards
, Michel O. Steinmetz
, Heike Meiselbach, Francesca Diella, Toby J. Gibson
:
ELM - the database of eukaryotic linear motifs. Nucleic Acids Res. 40(Database-Issue): 242-251 (2012) - [j18]Robert J. Weatheritt
, Peter Jehl, Holger Dinkel
, Toby J. Gibson
:
iELM - a web server to explore short linear motif-mediated interactions. Nucleic Acids Res. 40(Web-Server-Issue): 364-369 (2012) - 2011
- [j17]Holger Dinkel
, Claudia Chica
, Allegra Via, Cathryn M. Gould, Lars Juhl Jensen
, Toby J. Gibson
, Francesca Diella:
Phospho.ELM: a database of phosphorylation sites - update 2011. Nucleic Acids Res. 39(Database-Issue): 261-267 (2011) - 2010
- [j16]Cathryn M. Gould, Francesca Diella, Allegra Via, Pål Puntervoll, Christine Gemünd, Sophie Chabanis-Davidson, Sushama Michael
, Ahmed Sayadi, Jan Christian Bryne, Claudia Chica
, Markus Seiler, Norman E. Davey
, Niall J. Haslam
, Robert J. Weatheritt
, Aidan Budd, Tim Hughes, Jakub Pas, Leszek Rychlewski, Gilles Travé, Rein Aasland, Manuela Helmer-Citterich
, Rune Linding, Toby J. Gibson
:
ELM: the status of the 2010 eukaryotic linear motif resource. Nucleic Acids Res. 38(Database-Issue): 167-180 (2010)
2000 – 2009
- 2009
- [j15]Francesca Diella, Sophie Chabanis-Davidson, Katja Luck, Claudia Chica
, Chenna Ramu, Claus Nerlov, Toby J. Gibson
:
KEPE - a motif frequently superimposed on sumoylation sites in metazoan chromatin proteins and transcription factors. Bioinform. 25(1): 1-5 (2009) - [j14]Allegra Via, Cathryn M. Gould, Christine Gemünd, Toby J. Gibson
, Manuela Helmer-Citterich
:
A structure filter for the Eukaryotic Linear Motif Resource. BMC Bioinform. 10: 351 (2009) - [c1]Niall J. Haslam, Toby J. Gibson:
EpiC: A Resource for Integrating Information and Analyses to Enable Selection of Epitopes for Antibody Based Experiments. DILS 2009: 173-181 - 2008
- [j13]Sushama Michael
, Gilles Travé, Chenna Ramu, Claudia Chica
, Toby J. Gibson
:
Discovery of candidate KEN-box motifs using Cell Cycle keyword enrichment combined with native disorder prediction and motif conservation. Bioinform. 24(4): 453-457 (2008) - [j12]Claudia Chica
, Alberto Labarga
, Cathryn M. Gould, Rodrigo Lopez
, Toby J. Gibson
:
A tree-based conservation scoring method for short linear motifs in multiple alignments of protein sequences. BMC Bioinform. 9 (2008) - [j11]Emmanuel Perrodou, Claudia Chica
, Olivier Poch, Toby J. Gibson
, Julie Dawn Thompson:
A new protein linear motif benchmark for multiple sequence alignment software. BMC Bioinform. 9 (2008) - [j10]Francesca Diella, Cathryn M. Gould, Claudia Chica
, Allegra Via, Toby J. Gibson
:
Phospho.ELM: a database of phosphorylation sites - update 2008. Nucleic Acids Res. 36(Database-Issue): 240-244 (2008) - 2007
- [j9]Mark A. Larkin, Gordon Blackshields, Nigel P. Brown
, R. Chenna, Paul A. McGettigan
, Hamish McWilliam
, Franck Valentin, Iain M. Wallace
, Andreas Wilm
, Rodrigo Lopez
, Julie Dawn Thompson, Toby J. Gibson
, Desmond G. Higgins:
Clustal W and Clustal X version 2.0. Bioinform. 23(21): 2947-2948 (2007) - 2004
- [j8]Francesca Diella, Scott Cameron
, Christine Gemünd, Rune Linding, Allegra Via, Bernhard Küster
, Thomas Sicheritz-Pontén
, Nikolaj Blom
, Toby J. Gibson
:
Phospho.ELM: A database of experimentally verified phosphorylation sites in eukaryotic proteins. BMC Bioinform. 5: 79 (2004) - 2003
- [j7]Chenna Ramu, Hideaki Sugawara, Tadashi Koike, Rodrigo Lopez
, Toby J. Gibson
, Desmond G. Higgins, Julie Dawn Thompson:
Multiple sequence alignment with the Clustal series of programs. Nucleic Acids Res. 31(13): 3497-3500 (2003) - [j6]Pål Puntervoll, Rune Linding, Christine Gemünd, Sophie Chabanis-Davidson, Morten Mattingsdal
, Scott Cameron
, David M. A. Martin
, Gabriele Ausiello, Barbara Brannetti, Anna Costantini, Fabrizio Ferrè
, Vincenza Maselli, Allegra Via, Gianni Cesareni, Francesca Diella, Giulio Superti-Furga
, Lucjan Stanislaw Wyrwicz, Chenna Ramu, Caroline McGuigan, Rambabu Gudavalli, Ivica Letunic
, Peer Bork
, Leszek Rychlewski, Bernhard Küster
, Manuela Helmer-Citterich
, William N. Hunter, Rein Aasland, Toby J. Gibson
:
ELM server: a new resource for investigating short functional sites in modular eukaryotic proteins. Nucleic Acids Res. 31(13): 3625-3630 (2003) - [j5]Rune Linding, Robert B. Russell
, Victor Neduva, Toby J. Gibson
:
GlobPlot: exploring protein sequences for globularity and disorder. Nucleic Acids Res. 31(13): 3701-3708 (2003) - [j4]Konstantinos Bimpikis, Aidan Budd, Rune Linding, Toby J. Gibson
:
BLAST2SRS, a web server for flexible retrieval of related protein sequences in the SWISS-PROT and SPTrEMBL databases. Nucleic Acids Res. 31(13): 3792-3794 (2003) - 2000
- [j3]Chenna Ramu, Christine Gemünd, Toby J. Gibson
:
Object-oriented parsing of biological databases with Python. Bioinform. 16(7): 628-638 (2000)
1990 – 1999
- 1994
- [j2]Julie Dawn Thompson, Desmond G. Higgins, Toby J. Gibson
:
Improved sensitivity of profile searches through the use of sequence weights and gap excision. Comput. Appl. Biosci. 10(1): 19-29 (1994) - [j1]Toby J. Gibson
, Julie Dawn Thompson:
Detection of dsRNA-binding domains in RNA helicase A and Drosophila maleless: implications for monomeric RNA helicases. Nucleic Acids Res. 22(13): 2552-2556 (1994)
Coauthor Index
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last updated on 2024-05-08 21:40 CEST by the dblp team
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