Geoffrey J. Barton

According to our database, Geoffrey J. Barton authored at least 47 papers between 1991 and 2024.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of three.

2024

Comparative evaluation of methods for the prediction of protein-ligand binding sites.

Javier S. Utgés, Geoffrey J. Barton

J. Cheminformatics, December, 2024

2022

Missense variants in human ACE2 strongly affect binding to SARS-CoV-2 Spike providing a mechanism for ACE2 mediated genetic risk in Covid-19: A case study in affinity predictions of interface variants.

Stuart A. MacGowan, Michael I. Barton, Mikhail Kutuzov, Omer Dushek, P. Anton van der Merwe, Geoffrey J. Barton

PLoS Comput. Biol., 2022

PDBe-KB: collaboratively defining the biological context of structural data.

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

Nucleic Acids Res., 2022

2021

Ankyrin repeats in context with human population variation.

Javier S. Utgés, Maxim I. Tsenkov, Noah J. M. Dietrich, Stuart A. MacGowan, Geoffrey J. Barton

PLoS Comput. Biol., 2021

2020

PDBe-KB: a community-driven resource for structural and functional annotations.

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

Nucleic Acids Res., 2020

2019

Detection and mitigation of spurious antisense expression with RoSA.

Kira Mourão, Nicholas J. Schurch, Radek Lucoszek, Kimon Froussios, Katarzyna Mackinnon, Céline Duc, Gordon G. Simpson, Geoffrey J. Barton

F1000Research, 2019

Relative Abundance of Transcripts (<i>RATs</i>): Identifying differential isoform abundance from RNA-seq.

Kimon Froussios, Kira Mourão, Gordon G. Simpson, Geoffrey J. Barton, Nicholas J. Schurch

F1000Research, 2019

How well do RNA-Seq differential gene expression tools perform in a complex eukaryote? A case study in Arabidopsis thaliana.

Kimon Froussios, Nick J. Schurch, Katarzyna Mackinnon, Marek Gierlinski, Céline Duc, Gordon G. Simpson, Geoffrey J. Barton

Bioinform., 2019

2018

JABAWS 2.2 distributed web services for Bioinformatics: protein disorder, conservation and RNA secondary structure.

Peter V. Troshin, James B. Procter, Alexander Sherstnev, Daniel L. Barton, Fábio Madeira, Geoffrey J. Barton

Bioinform., 2018

2016

AlmostSignificant: simplifying quality control of high-throughput sequencing data.

Joseph Ward, Christian Cole, Melanie Febrer, Geoffrey J. Barton

Bioinform., 2016

2015

JPred4: a protein secondary structure prediction server.

Alexey Drozdetskiy, Christian Cole, James B. Procter, Geoffrey J. Barton

Nucleic Acids Res., 2015

14-3-3-Pred: improved methods to predict 14-3-3-binding phosphopeptides.

Fábio Madeira, Michele Tinti, Gavuthami Murugesan, Emily Berrett, Margaret Stafford, Rachel Toth, Christian Cole, Carol MacKintosh, Geoffrey J. Barton

Bioinform., 2015

Statistical models for RNA-seq data derived from a two-condition 48-replicate experiment.

Marek Gierlinski, Christian Cole, Pietà Schofield, Nicholas J. Schurch, Alexander Sherstnev, Vijender Singh, Nicola Wrobel, Karim Gharbi, Gordon G. Simpson, Tom Owen-Hughes, Mark L. Blaxter, Geoffrey J. Barton

Bioinform., 2015

2011

Global network analysis of drug tolerance, mode of action and virulence in methicillin-resistant S. aureus.

Ian M. Overton, Shirley Graham, Katherine A. Gould, Jason Hinds, Catherine H. Botting, Sally Shirran, Geoffrey J. Barton, Peter J. Coote

BMC Syst. Biol., 2011

NoD: a Nucleolar localization sequence detector for eukaryotic and viral proteins.

Michelle S. Scott, Peter V. Troshin, Geoffrey J. Barton

BMC Bioinform., 2011

Java bioinformatics analysis web services for multiple sequence alignment - JABAWS: MSA.

Peter V. Troshin, James B. Procter, Geoffrey J. Barton

Bioinform., 2011

2010

Human protein-protein interaction prediction.

Mark D. McDowall, Michelle S. Scott, Geoffrey J. Barton

BMC Bioinform., 2010

2009

Human miRNA Precursors with Box H/ACA snoRNA Features.

Michelle S. Scott, Fabio Avolio, Motoharu Ono, Angus I. Lamond, Geoffrey J. Barton

PLoS Comput. Biol., 2009

PIPs: human protein-protein interaction prediction database.

Mark D. McDowall, Michelle S. Scott, Geoffrey J. Barton

Nucleic Acids Res., 2009

Kinomer v. 1.0: a database of systematically classified eukaryotic protein kinases.

David M. A. Martin, Diego Miranda-Saavedra, Geoffrey J. Barton

Nucleic Acids Res., 2009

Jalview Version 2 - a multiple sequence alignment editor and analysis workbench.

Andrew M. Waterhouse, James B. Procter, David M. A. Martin, Michele E. Clamp, Geoffrey J. Barton

Bioinform., 2009

2008

SCANPS: a web server for iterative protein sequence database searching by dynamic programing, with display in a hierarchical SCOP browser.

Thomas P. Walsh, Caleb Webber, Stephen M. J. Searle, Shane S. Sturrock, Geoffrey J. Barton

Nucleic Acids Res., 2008

TarO: a target optimisation system for structural biology.

Ian M. Overton, C. A. Johannes van Niekerk, Lester G. Carter, Alice Dawson, David M. A. Martin, Scott Cameron, Stephen A. McMahon, Malcolm F. White, William N. Hunter, James H. Naismith, Geoffrey J. Barton

Nucleic Acids Res., 2008

The Jpred 3 secondary structure prediction server.

Christian Cole, Jonathan D. Barber, Geoffrey J. Barton

Nucleic Acids Res., 2008

The contrasting properties of conservation and correlated phylogeny in protein functional residue prediction.

Jonathan R. Manning, Emily R. Jefferson, Geoffrey J. Barton

BMC Bioinform., 2008

ParCrys: a Parzen window density estimation approach to protein crystallization propensity prediction.

Ian M. Overton, Gianandrea Padovani, Mark A. Girolami, Geoffrey J. Barton

Bioinform., 2008

2007

SNAPPI-DB: a database and API of Structures, iNterfaces and Alignments for Protein-Protein Interactions.

Emily R. Jefferson, Thomas P. Walsh, Timothy J. Roberts, Geoffrey J. Barton

Nucleic Acids Res., 2007

Prediction and ranking of human protein-protein interactions within a Bayesian framework.

Michelle S. Scott, Geoffrey J. Barton

BMC Syst. Biol., 2007

The relationship between domain-domain interaction orientation and sequence similarity.

Emily R. Jefferson, Geoffrey J. Barton

BMC Syst. Biol., 2007

Probabilistic prediction and ranking of human protein-protein interactions.

Michelle S. Scott, Geoffrey J. Barton

BMC Bioinform., 2007

2006

MACSIMS : multiple alignment of complete sequences information management system.

Julie Dawn Thompson, Arnaud Muller, Andrew M. Waterhouse, James B. Procter, Geoffrey J. Barton, Frédéric Plewniak, Olivier Poch

BMC Bioinform., 2006

Quantification of the variation in percentage identity for protein sequence alignments.

G. P. S. Raghava, Geoffrey J. Barton

BMC Bioinform., 2006

2005

Jalview: Visualization and Analysis of Molecular Sequences, Alignments, and Structures.

Andrew M. Waterhouse, James B. Procter, David M. A. Martin, Geoffrey J. Barton

BMC Bioinform., 2005

2004

E-MSD: an integrated data resource for bioinformatics.

Adel Golovin, Thomas J. Oldfield, John G. Tate, Samir S. Velankar, Geoffrey J. Barton, Harry Boutselakis, Dimitris Dimitropoulos, Joël Fillon, A. Hussain, John M. C. Ionides, Melford John, Peter A. Keller, Evgeny B. Krissinel, P. McNeil, Avi Naim, Richard H. Newman, Anne Pajon, Jorge Pineda, Abdel-Krim Rachedi, J. Copeland, Andrey Sitnov, Siamak Sobhany, Antonio Suarez-Uruena, G. J. Swaminathan, Mohammed Tagari, Swen Tromm, Wim F. Vranken, Kim Henrick

Nucleic Acids Res., 2004

GOtcha: a new method for prediction of protein function assessed by the annotation of seven genomes.

David M. A. Martin, Matthew Berriman, Geoffrey J. Barton

BMC Bioinform., 2004

The Jalview Java alignment editor.

Michele E. Clamp, James A. Cuff, Stephen M. J. Searle, Geoffrey J. Barton

Bioinform., 2004

2003

OXBench: A benchmark for evaluation of protein multiple sequence alignment accuracy.

G. P. S. Raghava, Stephen M. J. Searle, Patrick C. Audley, Jonathan D. Barber, Geoffrey J. Barton

BMC Bioinform., 2003

Increased Coverage Obtained by Combination of Methods for Protein Sequence Database Searching.

Caleb Webber, Geoffrey J. Barton

Bioinform., 2003

Visual Representation of Database Search Results: The RHIMS Plot.

David M. A. Martin, Pamela Hill, Geoffrey J. Barton, Andrew J. Flavell

Bioinform., 2003

2001

Estimation of P-values for global alignments of protein sequences.

Caleb Webber, Geoffrey J. Barton

Bioinform., 2001

3Dee: a database of protein structural domains.

Asim S. Siddiqui, Uwe Dengler, Geoffrey J. Barton

Bioinform., 2001

2000

ProtEST: protein multiple sequence alignments from expressed sequence tags.

James A. Cuff, Ewan Birney, Michele E. Clamp, Geoffrey J. Barton

Bioinform., 2000

1998

JPred: a consensus secondary structure prediction server.

James A. Cuff, Michele E. Clamp, Asim S. Siddiqui, M. Finlay, Geoffrey J. Barton

Bioinform., 1998

1995

Protein fold recognition from secondary structure assignments.

Robert B. Russell, R. R. Copley, Geoffrey J. Barton

Proceedings of the 28th Annual Hawaii International Conference on System Sciences (HICSS-28), 1995

1993

Protein sequence alignments: a strategy for the hierarchical analysis of residue conservation.

C. D. Livingstone, Geoffrey J. Barton

Comput. Appl. Biosci., 1993

An efficient algorithm to locate all locally optimal alignments between two sequences allowing for gaps.

Geoffrey J. Barton

Comput. Appl. Biosci., 1993

1991

Scanning protein sequence databanks using a distributed processing workstation network.

Geoffrey J. Barton

Comput. Appl. Biosci., 1991