Structure-based identification and clustering of protein families and superfamilies. - Stephen D. Rufino; Tom L. Blundell (J. Comput. Aided Mol. Des., 1994)

The pattern of common supersecondary structure (motifs) in protein database. - Zhirong Sun; Tom L. Blundell (HICSS (5), 1995)

JOY: protein sequence-structure representation and analysis. - Kenji Mizuguchi; Charlotte M. Deane; Tom L. Blundell; Mark S. Johnson; John P. Overington (Bioinform., 1998)

Browsing the SLoop database of structurally classified loops connecting elements of protein secondary structure. - David F. Burke; Charlotte M. Deane; Tom L. Blundell (Bioinform., 2000)

Analysis of conservation and substitutions of secondary structure elements within protein superfamilies. - Kenji Mizuguchi; Tom L. Blundell (Bioinform., 2000)

HOMSTRAD: adding sequence information to structure-based alignments of homologous protein families. - Paul I. W. de Bakker; Alex Bateman; David F. Burke; Ricardo Núñez Miguel; Kenji Mizuguchi; Jiye Shi; Hiroki Shirai; Tom L. Blundell (Bioinform., 2001)

SCORE: predicting the core of protein models. - Charlotte M. Deane; Quentin Kaas; Tom L. Blundell (Bioinform., 2001)

DDBASE2.0: updated domain database with improved identification of structural domains. - A. Vinayagam; Jiye Shi; Ganesan Pugalenthi; B. Meenakshi 004; Tom L. Blundell; Ramanathan Sowdhamini (Bioinform., 2003)

PROVAT: a tool for Voronoi tessellation analysis of protein structures and complexes. - Swanand P. Gore; David F. Burke; Tom L. Blundell (Bioinform., 2005)

CHORAL: a differential geometry approach to the prediction of the cores of protein structures. - Rinaldo W. Montalvão; Richard E. Smith; Simon C. Lovell; Tom L. Blundell (Bioinform., 2005)

PROVAT - a versatile tool for Voronoi tessellation analysis of protein structures and complexes. - Swanand P. Gore; David F. Burke; Tom L. Blundell (BMC Bioinform., 2005)

Andante: reducing side-chain rotamer search space during comparative modeling using environment-specific substitution probabilities. - Richard E. Smith; Simon C. Lovell; David F. Burke; Rinaldo W. Montalvão; Tom L. Blundell (Bioinform., 2007)

Genome bioinformatic analysis of nonsynonymous SNPs. - David F. Burke; Catherine L. Worth; Eva-Maria Priego; Tammy M. K. Cheng; Luc J. Smink; John A. Todd; Tom L. Blundell (BMC Bioinform., 2007)

A Structural Bioinformatics Approach to the Analysis of nonsynonymous Single nucleotide polymorphisms (nsSNPS) and their Relation to Disease. - Catherine L. Worth; G. Richard J. Bickerton; Adrian Schreyer; Julia R. Forman; Tammy M. K. Cheng; Semin Lee; Sungsam Gong; David F. Burke; Tom L. Blundell (J. Bioinform. Comput. Biol., 2007)

Structural assembly of two-domain proteins by rigid-body docking. - Tammy M. K. Cheng; Tom L. Blundell; Juan Fernández-Recio (BMC Bioinform., 2008)

Prediction by Graph Theoretic Measures of Structural Effects in Proteins Arising from Non-Synonymous Single Nucleotide Polymorphisms. - Tammy M. K. Cheng; Yu-En Lu; Michele Vendruscolo; Pietro Liò; Tom L. Blundell (PLoS Comput. Biol., 2008)

Discarding Functional Residues from the Substitution Table Improves Predictions of Active Sites within Three-Dimensional Structures. - Sungsam Gong; Tom L. Blundell (PLoS Comput. Biol., 2008)

BIPA: a database for protein-nucleic acid interaction in 3D structures. - Semin Lee; Tom L. Blundell (Bioinform., 2009)

Ulla: a program for calculating environment-specific amino acid substitution tables. - Semin Lee; Tom L. Blundell (Bioinform., 2009)

Comprehensive, atomic-level characterization of structurally characterized protein-protein interactions: the PICCOLO database. - George R. Bickerton; Alicia P. Higueruelo; Tom L. Blundell (BMC Bioinform., 2011)

SDM - a server for predicting effects of mutations on protein stability and malfunction. - Catherine L. Worth; Robert Preissner; Tom L. Blundell (Nucleic Acids Res., 2011)

USRCAT: real-time ultrafast shape recognition with pharmacophoric constraints. - Adrian Schreyer; Tom L. Blundell (J. Cheminformatics, 2012)

TIMBAL v2: update of a database holding small molecules modulating protein-protein interactions. - Alicia P. Higueruelo; Harry Jubb; Tom L. Blundell (Database J. Biol. Databases Curation, 2013)

CREDO: a structural interactomics database for drug discovery. - Adrian Schreyer; Tom L. Blundell (Database J. Biol. Databases Curation, 2013)

Genome3D: a UK collaborative project to annotate genomic sequences with predicted 3D structures based on SCOP and CATH domains. - Tony E. Lewis; Ian Sillitoe; Antonina Andreeva; Tom L. Blundell; Daniel W. A. Buchan; Cyrus Chothia; Alison L. Cuff; Jose M. Dana; Ioannis Filippis; Julian Gough; Sarah Hunter; David T. Jones; et al. (Nucleic Acids Res., 2013)

mCSM: predicting the effects of mutations in proteins using graph-based signatures. - Douglas E. V. Pires; David B. Ascher; Tom L. Blundell (Bioinform., 2014)

Polyphony: superposition independent methods for ensemble-based drug discovery. - William R. Pitt; Rinaldo W. Montalvão; Tom L. Blundell (BMC Bioinform., 2014)

Does a More Precise Chemical Description of Protein-Ligand Complexes Lead to More Accurate Prediction of Binding Affinity? - Pedro J. Ballester; Adrian Schreyer; Tom L. Blundell (J. Chem. Inf. Model., 2014)

DUET: a server for predicting effects of mutations on protein stability using an integrated computational approach. - Douglas E. V. Pires; David B. Ascher; Tom L. Blundell (Nucleic Acids Res., 2014)

SInCRe - structural interactome computational resource for Mycobacterium tuberculosis. - Rahul Metri; Sridhar Hariharaputran; Gayatri Ramakrishnan; Praveen Anand; Upadhyayula S. Raghavender; Bernardo Ochoa-Montaño; Alicia P. Higueruelo; Ramanathan Sowdhamini; Nagasuma R. Chandra; Tom L. Blundell; Narayanaswamy Srinivasan (Database J. Biol. Databases Curation, 2015)

CHOPIN: a web resource for the structural and functional proteome of Mycobacterium tuberculosis. - Bernardo Ochoa-Montaño; Nishita Mohan; Tom L. Blundell (Database J. Biol. Databases Curation, 2015)

Genome3D: exploiting structure to help users understand their sequences. - Tony E. Lewis; Ian Sillitoe; Antonina Andreeva; Tom L. Blundell; Daniel W. A. Buchan; Cyrus Chothia; Domenico Cozzetto; Jose M. Dana; Ioannis Filippis; Julian Gough; David T. Jones; Lawrence A. Kelley; et al. (Nucleic Acids Res., 2015)

Platinum: a database of experimentally measured effects of mutations on structurally defined protein-ligand complexes. - Douglas E. V. Pires; Tom L. Blundell; David B. Ascher (Nucleic Acids Res., 2015)

TIBLE: a web-based, freely accessible resource for small-molecule binding data for mycobacterial species. - Sony Malhotra; Grace Mugumbate; Tom L. Blundell; Alicia P. Higueruelo (Database J. Biol. Databases Curation, 2017)

XSuLT: a web server for structural annotation and representation of sequence-structure alignments. - Bernardo Ochoa-Montaño; Tom L. Blundell (Nucleic Acids Res., 2017)

SDM: a server for predicting effects of mutations on protein stability. - Arun Prasad Pandurangan; Bernardo Ochoa-Montaño; David B. Ascher; Tom L. Blundell (Nucleic Acids Res., 2017)

Mabellini: a genome-wide database for understanding the structural proteome and evaluating prospective antimicrobial targets of the emerging pathogen Mycobacterium abscessus. - Marcin J. Skwark; Pedro Henrique Monteiro Torres; Liviu Copoiu; Bridget Bannerman-Chukualim; R. Andres Floto; Tom L. Blundell (Database J. Biol. Databases Curation, 2019)

Utilising Graph Machine Learning within Drug Discovery and Development. - Thomas Gaudelet; Ben Day; Arian R. Jamasb; Jyothish Soman; Cristian Regep; Gertrude Liu; Jeremy B. R. Hayter; Richard Vickers; Charles Roberts; Jian Tang 005; David Roblin; Tom L. Blundell; et al. (CoRR, 2020)

Systematic Investigation of the Data Set Dependency of Protein Stability Predictors. - Octav Caldararu; Rukmankesh Mehra; Tom L. Blundell; Kasper P. Kepp (J. Chem. Inf. Model., 2020)

Hotspots API: A Python Package for the Detection of Small Molecule Binding Hotspots and Application to Structure-Based Drug Design. - Peter R. Curran; Chris J. Radoux; Mihaela D. Smilova; Richard A. Sykes; Alicia P. Higueruelo; Anthony R. Bradley; Brian D. Marsden; David R. Spring; Tom L. Blundell; Andrew R. Leach; William R. Pitt; Jason C. Cole (J. Chem. Inf. Model., 2020)

ProCarbDB: a database of carbohydrate-binding proteins. - Liviu Copoiu; Pedro H. M. Torres; David B. Ascher; Tom L. Blundell; Sony Malhotra (Nucleic Acids Res., 2020)

Genome3D: integrating a collaborative data pipeline to expand the depth and breadth of consensus protein structure annotation. - Ian Sillitoe; Antonina Andreeva; Tom L. Blundell; Daniel W. A. Buchan; Robert D. Finn; Julian Gough; David T. Jones; Lawrence A. Kelley; Typhaine Paysan-Lafosse; Su Datt Lam; Alexey G. Murzin; Arun Prasad Pandurangan; et al. (Nucleic Acids Res., 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; et al. (Nucleic Acids Res., 2020)

SARS-CoV-2 3D database: understanding the coronavirus proteome and evaluating possible drug targets. - Ali F. Alsulami; Sherine E. Thomas; Arian R. Jamasb; Christopher A. Beaudoin; Ismail Moghul; Bridget Bannerman; Liviu Copoiu; Sundeep Chaitanya Vedithi; Pedro Torres 002; Tom L. Blundell (Briefings Bioinform., 2021)

COSMIC Cancer Gene Census 3D database: understanding the impacts of mutations on cancer targets. - Ali F. Alsulami; Pedro H. M. Torres; Ismail Moghul; Sheikh Mohammed Arif; Amanda K. Chaplin; Sundeep Chaitanya Vedithi; Tom L. Blundell (Briefings Bioinform., 2021)

Utilizing graph machine learning within drug discovery and development. - Thomas Gaudelet; Ben Day; Arian R. Jamasb; Jyothish Soman; Cristian Regep; Gertrude Liu; Jeremy B. R. Hayter; Richard Vickers; Charles Roberts; Jian Tang 005; David Roblin; Tom L. Blundell; et al. (Briefings Bioinform., 2021)

ProtCHOIR: a tool for proteome-scale generation of homo-oligomers. - Pedro H. M. Torres; Artur D. Rossi; Tom L. Blundell (Briefings Bioinform., 2021)

A base measure of precision for protein stability predictors: structural sensitivity. - Octav Caldararu; Tom L. Blundell; Kasper P. Kepp (BMC Bioinform., 2021)

Three Simple Properties Explain Protein Stability Change upon Mutation. - Octav Caldararu; Tom L. Blundell; Kasper P. Kepp (J. Chem. Inf. Model., 2021)

Graphein - a Python Library for Geometric Deep Learning and Network Analysis on Biomolecular Structures and Interaction Networks. - Arian R. Jamasb; Ramón Viñas Torné 001; Eric Ma; Yuanqi Du; Charles Harris; Kexin Huang; Dominic Hall; Pietro Lió; Tom L. Blundell (NeurIPS, 2022)

Unheeded SARS-CoV-2 proteins? A deep look into negative-sense RNA. - Martin Bartas; Adriana Volná; Christopher A. Beaudoin; Ebbe Toftgaard Poulsen; Jirí Cerven; Václav Brázda; Vladimír Spunda; Tom L. Blundell; Petr Pecinka (Briefings Bioinform., 2022)

Structural landscapes of PPI interfaces. - Carlos H. M. Rodrigues; Douglas E. V. Pires; Tom L. Blundell; David B. Ascher (Briefings Bioinform., 2022)

Structure-based Drug Design with Equivariant Diffusion Models. - Arne Schneuing; Yuanqi Du; Charles Harris; Arian R. Jamasb; Ilia Igashov; Weitao Du; Tom L. Blundell; Pietro Lió; Carla Gomes 001; Max Welling; Michael M. Bronstein; Bruno E. Correia (CoRR, 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; et al. (Nucleic Acids Res., 2022)

Evaluating Representation Learning on the Protein Structure Universe. - Arian Rokkum Jamasb; Alex Morehead; Chaitanya K. Joshi; Zuobai Zhang; Kieran Didi; Simon V. Mathis; Charles Harris; Jian Tang 005; Jianlin Cheng; Pietro Lio; Tom L. Blundell (ICLR, 2024)

Machine learning-aided generative molecular design. - Yuanqi Du; Arian R. Jamasb; Jeff Guo; Tianfan Fu; Charles Harris; Yingheng Wang; Chenru Duan; Pietro Liò; Philippe Schwaller; Tom L. Blundell (Nat. Mac. Intell., 2024)

Structure-based drug design with equivariant diffusion models. - Arne Schneuing; Charles Harris; Yuanqi Du; Kieran Didi; Arian Rokkum Jamasb; Ilia Igashov; Weitao Du; Carla P. Gomes; Tom L. Blundell; Pietro Lio; Max Welling; Michael M. Bronstein; et al. (Nat. Comput. Sci., 2024)