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Charlotte M Deane (Charlotte Deane)

Scopus Author ID Scopus Author ID ORCID

Publication Activity (10 Years)

Years Active: 2017-2023
Publications (10 Years): 53

Top Venues

Journal of chemical information and modeling

mAbs

Bioinformatics (Oxford, England)

Proteins

This page only lists publications with an associated author ORCID identifier.

Publications

Eve Richardson, Špela Binter, Miha Kosmac, Marie Ghraichy, Valentin von Niederhäusern, Aleksandr Kovaltsuk, Jacob D Galson, Johannes Trück, Dominic F Kelly, Charlotte M Deane, Paul Kellam, Simon J Watson
Characterisation of the immune repertoire of a humanised transgenic mouse through immunophenotyping and high-throughput sequencing. eLife 12 (2023)
Serena Vales, Jhanna Kryukova, Soumyanetra Chandra, Gintare Smagurauskaite, Megan Payne, Charlie J Clark, Katrin Hafner, Philomena Mburu, Stepan S Denisov, Graham Davies, Carlos Outeiral, Charlotte M Deane, Garrett M Morris, Shoumo Bhattacharya
Discovery and pharmacophoric characterization of chemokine network inhibitors using phage-display, saturation mutagenesis and computational modelling. Nature communications 14 (1) (2023)
Oliver M Crook, Nathan Gittens, Chun-Wa Chung, Charlotte M Deane
A Functional Bayesian Model for Hydrogen-Deuterium Exchange Mass Spectrometry. Journal of proteome research (2023)
Jack Scantlebury, Lucy Vost, Anna Carbery, Thomas E Hadfield, Oliver M Turnbull, Nathan Brown, Vijil Chenthamarakshan, Payel Das, Harold Grosjean, Frank von Delft, Charlotte M Deane
A Small Step Toward Generalizability: Training a Machine Learning Scoring Function for Structure-Based Virtual Screening. Journal of chemical information and modeling 63 (10) (2023)
Jack Scantlebury, Lucy Vost, Anna Carbery, Thomas E Hadfield, Oliver M Turnbull, Nathan Brown, Vijil Chenthamarakshan, Payel Das, Harold Grosjean, Frank von Delft, Charlotte M Deane
A Small Step Toward Generalizability: Training a Machine Learning Scoring Function for Structure-Based Virtual Screening. Journal of chemical information and modeling 63 (10) (2023)
Tobias H Olsen, Brennan Abanades, Iain H Moal, Charlotte M Deane
KA-Search, a method for rapid and exhaustive sequence identity search of known antibodies. Scientific reports 13 (1) (2023)
Brennan Abanades, Wing Ki Wong, Fergus Boyles, Guy Georges, Alexander Bujotzek, Charlotte M Deane
ImmuneBuilder: Deep-Learning models for predicting the structures of immune proteins. Communications biology 6 (1) (2023)
Brennan Abanades, Tobias H Olsen, Matthew I J Raybould, Broncio Aguilar-Sanjuan, Wing Ki Wong, Guy Georges, Alexander Bujotzek, Charlotte M Deane
The Patent and Literature Antibody Database (PLAbDab): an evolving reference set of functionally diverse, literature-annotated antibody sequences and structures. Nucleic acids research (2023)
Jack Scantlebury, Lucy Vost, Anna Carbery, Thomas E Hadfield, Oliver M Turnbull, Nathan Brown, Vijil Chenthamarakshan, Payel Das, Harold Grosjean, Frank von Delft, Charlotte M Deane
A Small Step Toward Generalizability: Training a Machine Learning Scoring Function for Structure-Based Virtual Screening. Journal of chemical information and modeling (2023)
Carlos Outeiral, Charlotte M Deane
Perfecting antibodies with language models. Nature biotechnology (2023)
Jack Scantlebury, Lucy Vost, Anna Carbery, Thomas E Hadfield, Oliver M Turnbull, Nathan Brown, Vijil Chenthamarakshan, Payel Das, Harold Grosjean, Frank von Delft, Charlotte M Deane
A Small Step Toward Generalizability: Training a Machine Learning Scoring Function for Structure-Based Virtual Screening. Journal of chemical information and modeling (2023)
Stephanie Wills, Ruben Sanchez-Garcia, Tim Dudgeon, Stephen D Roughley, Andy Merritt, Roderick Eliot Hubbard, James Davidson, Frank von Delft, Charlotte M Deane
Fragment Merging Using a Graph Database Samples Different Catalogue Space than Similarity Search. Journal of chemical information and modeling (2023)
Carlos Outeiral, Daniel A Nissley, Charlotte M Deane
Current structure predictors are not learning the physics of protein folding. Bioinformatics (Oxford, England) 38 (7) (2022)
Thomas E Hadfield, Fergus Imrie, Andy Merritt, Kristian Birchall, Charlotte M Deane
Incorporating Target-Specific Pharmacophoric Information into Deep Generative Models for Fragment Elaboration. Journal of chemical information and modeling 62 (10) (2022)
Tobias Hegelund Olsen, Iain H Moal, Charlotte M Deane
AbLang: an antibody language model for completing antibody sequences. Bioinformatics advances 2 (1) (2022)
Matthew I J Raybould, Anthony R Rees, Charlotte M Deane
Current strategies for detecting functional convergence across B-cell receptor repertoires. mAbs 13 (1) (2022)
Brennan Abanades, Guy Georges, Alexander Bujotzek, Charlotte M Deane
ABlooper: fast accurate antibody CDR loop structure prediction with accuracy estimation. Bioinformatics (Oxford, England) 38 (7) (2022)
Anna Carbery, Rachael Skyner, Frank von Delft, Charlotte M Deane
Fragment Libraries Designed to Be Functionally Diverse Recover Protein Binding Information More Efficiently Than Standard Structurally Diverse Libraries. Journal of medicinal chemistry 65 (16) (2022)
Oliver M Crook, Chun-Wa Chung, Charlotte M Deane
Empirical Bayes functional models for hydrogen deuterium exchange mass spectrometry. Communications biology 5 (1) (2022)
Oliver M Crook, Chun-Wa Chung, Charlotte M Deane
Challenges and Opportunities for Bayesian Statistics in Proteomics. Journal of proteome research 21 (4) (2022)
Andrei L Lomize, Kevin A Schnitzer, Spencer C Todd, Stanislav Cherepanov, Carlos Outeiral, Charlotte M Deane, Irina D Pogozheva
Membranome 3.0: Database of single-pass membrane proteins with AlphaFold models. Protein science : a publication of the Protein Society 31 (5) (2022)
Rahul Khetan, Robin A Curtis, Charlotte M Deane, Johannes Thorling Hadsund, Uddipan Kar, Konrad Krawczyk, Daisuke Kuroda, Sarah A Robinson, Pietro Sormanni, Kouhei Tsumoto, Jim Warwicker, Andrew C R Martin
Current advances in biopharmaceutical informatics: guidelines, impact and challenges in the computational developability assessment of antibody therapeutics. mAbs 14 (1) (2022)
Constantin Schneider, Matthew I J Raybould, Charlotte M Deane
SAbDab in the age of biotherapeutics: updates including SAbDab-nano, the nanobody structure tracker. Nucleic acids research 50 (D1) (2022)
Tobias Hegelund Olsen, Iain H Moal, Charlotte M Deane
AbLang: an antibody language model for completing antibody sequences. Bioinformatics advances 2 (1) (2022)
Fergus Boyles, Charlotte M Deane, Garrett M Morris
Learning from Docked Ligands: Ligand-Based Features Rescue Structure-Based Scoring Functions When Trained on Docked Poses. Journal of chemical information and modeling (2021)
Fergus Imrie, Thomas E Hadfield, Anthony R Bradley, Charlotte M Deane
Deep generative design with 3D pharmacophoric constraints. Chemical science 12 (43) (2021)
Lyuba V Bozhilova, Javier Pardo-Diaz, Gesine Reinert, Charlotte M Deane
COGENT: evaluating the consistency of gene co-expression networks. Bioinformatics (Oxford, England) 37 (13) (2021)
Wing Ki Wong, Sarah A Robinson, Alexander Bujotzek, Guy Georges, Alan P Lewis, Jiye Shi, James Snowden, Bruck Taddese, Charlotte M Deane
Ab-Ligity: identifying sequence-dissimilar antibodies that bind to the same epitope. mAbs 13 (1) (2021)
Tobias Hegelund Olsen, Fergus Boyles, Charlotte M Deane
Observed Antibody Space: A diverse database of cleaned, annotated, and translated unpaired and paired antibody sequences. Protein science : a publication of the Protein Society (2021)
Eve Richardson, Jacob D Galson, Paul Kellam, Dominic F Kelly, Sarah E Smith, Anne Palser, Simon Watson, Charlotte M Deane
A computational method for immune repertoire mining that identifies novel binders from different clonotypes, demonstrated by identifying anti-pertussis toxoid antibodies. mAbs 13 (1) (2021)
Matthew I J Raybould, Aleksandr Kovaltsuk, Claire Marks, Charlotte M Deane
CoV-AbDab: the coronavirus antibody database. Bioinformatics (Oxford, England) 37 (5) (2021)
Marie Ghraichy, Valentin von Niederhäusern, Aleksandr Kovaltsuk, Jacob D Galson, Charlotte M Deane, Johannes Trück
Different B cell subpopulations show distinct patterns in their IgH repertoire metrics. eLife 10 (2021)
Jack Scantlebury, Nathan Brown, Frank von Delft, Charlotte M Deane
Data Set Augmentation Allows Deep Learning-Based Virtual Screening to Better Generalize to Unseen Target Classes and Highlight Important Binding Interactions. Journal of chemical information and modeling 60 (8) (2020)
Fergus Imrie, Anthony R Bradley, Mihaela van der Schaar, Charlotte M Deane
Deep Generative Models for 3D Linker Design. Journal of chemical information and modeling 60 (4) (2020)
Claire Marks, Charlotte M Deane
How repertoire data are changing antibody science. The Journal of biological chemistry 295 (29) (2020)
Samuel Demharter, Bernhard Knapp, Charlotte M Deane, Peter Minary
HLA-DM Stabilizes the Empty MHCII Binding Groove: A Model Using Customized Natural Move Monte Carlo. Journal of chemical information and modeling 59 (6) (2019)
Lyuba V Bozhilova, Alan V Whitmore, Jonny Wray, Gesine Reinert, Charlotte M Deane
Measuring rank robustness in scored protein interaction networks. BMC bioinformatics 20 (1) (2019)
Matthew I J Raybould, Claire Marks, Konrad Krawczyk, Bruck Taddese, Jaroslaw Nowak, Alan P Lewis, Alexander Bujotzek, Jiye Shi, Charlotte M Deane
Five computational developability guidelines for therapeutic antibody profiling. Proceedings of the National Academy of Sciences of the United States of America 116 (10) (2019)
Bernhard Knapp, P Anton van der Merwe, Omer Dushek, Charlotte M Deane
MHC binding affects the dynamics of different T-cell receptors in different ways. PLoS computational biology 15 (9) (2019)
Dominik Schwarz, Benjamin Merget, Charlotte M Deane, Simone Fulle
Modeling conformational flexibility of kinases in inactive states. Proteins 87 (11) (2019)
Konrad Krawczyk, Matthew I J Raybould, Aleksandr Kovaltsuk, Charlotte M Deane
Looking for therapeutic antibodies in next-generation sequencing repositories. mAbs 11 (7) (2019)
Jean-Paul Ebejer, Paul W Finn, Wing Ki Wong, Charlotte M Deane, Garrett M Morris
Ligity: A Non-Superpositional, Knowledge-Based Approach to Virtual Screening. Journal of chemical information and modeling 59 (6) (2019)
Fergus Imrie, Anthony R Bradley, Mihaela van der Schaar, Charlotte M Deane
Protein Family-Specific Models Using Deep Neural Networks and Transfer Learning Improve Virtual Screening and Highlight the Need for More Data. Journal of chemical information and modeling 58 (11) (2018)
Aleksandr Kovaltsuk, Jinwoo Leem, Alastair D G Lawson, James Snowden, Charlotte M Deane, Konrad Krawczyk
Observed Antibody Space: A Resource for Data Mining Next-Generation Sequencing of Antibody Repertoires. Journal of immunology (Baltimore, Md. : 1950) 201 (8) (2018)
Aleksandr Kovaltsuk, Konrad Krawczyk, Alastair D G Lawson, James Snowden, Charlotte M Deane
Filtering Next-Generation Sequencing of the Ig Gene Repertoire Data Using Antibody Structural Information. Journal of immunology (Baltimore, Md. : 1950) 201 (12) (2018)
Jinwoo Leem, Guy Georges, Jiye Shi, Charlotte M Deane
Antibody side chain conformations are position-dependent. Proteins 86 (4) (2018)
Bernhard Knapp, Luis Ospina, Charlotte M Deane
Avoiding False Positive Conclusions in Molecular Simulation: The Importance of Replicas. Journal of chemical theory and computation 14 (12) (2018)
Cristian Regep, Guy Georges, Jiye Shi, Bojana Popovic, Charlotte M Deane
The H3 loop of antibodies shows unique structural characteristics. Proteins 85 (7) (2017)
Samuel Demharter, Nicholas M Pearce, Kylie Beattie, Isabel Frost, Jinwoo Leem, Alistair Martin, Robert Oppenheimer, Cristian Regep, Tammo Rukat, Alexander Skates, Nicola Trendel, David J Gavaghan, Charlotte M Deane, Bernhard Knapp
Ten simple rules for surviving an interdisciplinary PhD. PLoS computational biology 13 (5) (2017)
Nicholas M Pearce, Tobias Krojer, Anthony R Bradley, Patrick M Collins, Radosław P Nowak, Romain Talon, Brian D Marsden, Sebastian Kelm, Jiye Shi, Charlotte M Deane, Frank von Delft
A multi-crystal method for extracting obscured crystallographic states from conventionally uninterpretable electron density. Nature communications 8 (2017)
Tom Parks, Mariana M Mirabel, Joseph Kado, Kathryn Auckland, Jaroslaw Nowak, Anna Rautanen, Alexander J Mentzer, Eloi Marijon, Xavier Jouven, Mai Ling Perman, Tuliana Cua, John K Kauwe, John B Allen, Henry Taylor, Kathryn J Robson, Charlotte M Deane, Andrew C Steer, Adrian V S Hill, null null
Association between a common immunoglobulin heavy chain allele and rheumatic heart disease risk in Oceania. Nature communications 8 (2017)
Saulo de Oliveira, Charlotte M Deane
Co-evolution techniques are reshaping the way we do structural bioinformatics. F1000Research 6 (2017)
Jack W C Chen, Zhuo A Chen, Kacper B Rogala, Jeremy Metz, Charlotte M Deane, Juri Rappsilber, James G Wakefield
Cross-linking mass spectrometry identifies new interfaces of Augmin required to localise the γ-tubulin ring complex to the mitotic spindle. Biology open 6 (5) (2017)

Charlotte M Deane.css-eqlu8i{font-size:small;padding-left:4px;} (Charlotte Deane)

Publication Activity (10 Years)

Top Topics

Top Venues

Charlotte M Deane (Charlotte Deane)