Using Prolog to Represent and Reason about Protein Structure. - Christopher J. Rawlings; W. R. Taylor; J. Nyakairu; John Fox 001; Michael J. E. Sternberg (ICLP, 1986)

PROMOT: a FORTRAN program to scan protein sequences against a library of known motifs. - Michael J. E. Sternberg (Comput. Appl. Biosci., 1991)

Machine Learning and biomolecular modelling. - Michael J. E. Sternberg; R. A. Lewis; Ross D. King; Stephen H. Muggleton (Machine Intelligence 13, 1992)

Discovery of Protein Structural Constraints in a Deductive Database using Inductive Logic Programming. - Ross D. King; Dominic A. Clark; Jack Shirazi; Michael J. E. Sternberg (Machine Intelligence 14, 1993)

Inductive Logic Programming Used to Discover Topological Constraints in Protein Structures. - Ross D. King; Dominic A. Clark; Jack Shirazi; Michael J. E. Sternberg (ISMB, 1994)

Quantitative structure-activity relationships by neural networks and inductive logic programming. I. The inhibition of dihydrofolate reductase by pyrimidines. - Jonathan D. Hirst; Ross D. King; Michael J. E. Sternberg (J. Comput. Aided Mol. Des., 1994)

Quantitative structure-activity relationships by neural networks and inductive logic programming. II. The inhibition of dihydrofolate reductase by triazines. - Jonathan D. Hirst; Ross D. King; Michael J. E. Sternberg (J. Comput. Aided Mol. Des., 1994)

Towards an Intelligent System for the Automatic Assignment of Domains in Globular Proteins. - Michael J. E. Sternberg; Hedvig Hegyi; Suhail A. Islam; Jingchu Luo; Robert B. Russell (ISMB, 1995)

Drug Design by Machine Learning. - Michael J. E. Sternberg; Ross D. King; Ashwin Srinivasan 001; Stephen H. Muggleton (Machine Intelligence 15, 1995)

Relating Chemical Activity to Structure: An Examination of ILP Successes. - Ross D. King; Michael J. E. Sternberg; Ashwin Srinivasan 001 (New Gener. Comput., 1995)

Theories for Mutagenicity: A Study in First-Order and Feature-Based Induction. - Ashwin Srinivasan 001; Stephen H. Muggleton; Michael J. E. Sternberg; Ross D. King (Artif. Intell., 1996)

The Predictive Toxicology Evaluation Challenge. - Ashwin Srinivasan 001; Ross D. King; Stephen H. Muggleton; Michael J. E. Sternberg (IJCAI (1), 1997)

Carcinogenesis Predictions Using ILP. - Ashwin Srinivasan 001; Ross D. King; Stephen H. Muggleton; Michael J. E. Sternberg (ILP, 1997)

DSC: public domain protein secondary structure predication. - Ross D. King; Mansoor A. S. Saqi; Roger A. Sayle; Michael J. E. Sternberg (Comput. Appl. Biosci., 1997)

Biochemical Knowledge Discovery Using Inductive Logic Programming. - Stephen H. Muggleton; Ashwin Srinivasan 001; Ross D. King; Michael J. E. Sternberg (Discovery Science, 1998)

Application of Inductive Logic Programming to Discover Rules Governing the Three-Dimensional Topology of Protein Structure. - Marcel Turcotte; Stephen H. Muggleton; Michael J. E. Sternberg (ILP, 1998)

A Computational System for Modeling Flexible Protein-Protein and protein-DNA Docking. - Michael J. E. Sternberg; Patrick Aloy; Henry A. Gabb; Richard M. Jackson; Gidon Moont; Enrique Querol; Francesc X. Avilés (ISMB, 1998)

Genome annotation with PSI-BLAST: Benchmark and application. - Arne Müller; Robert M. MacCallum; Michael J. E. Sternberg (German Conference on Bioinformatics, 1999)

Recognition of remote protein homologies using three-dimensional information to generate a position specific scoring matrix in the program 3D-PSSM. - Lawrence A. Kelley; Robert M. MacCallum; Michael J. E. Sternberg (RECOMB, 1999)

SAWTED: Structure Assignment With Text Description-Enhanced detection of remote homologues with automated SWISS-PROT annotation comparisons. - Robert M. MacCallum; Lawrence A. Kelley; Michael J. E. Sternberg (Bioinform., 2000)

Use of Inductive Logic Programming to Learn Principles of Protein Structure. - Marcel Turcotte; Stephen H. Muggleton; Michael J. E. Sternberg (Electron. Trans. Artif. Intell., 2000)

Structural annotation of the human genome. - Arne Müller; Michael J. E. Sternberg (German Conference on Bioinformatics, 2001)

Automatic determination of protein fold signatures from structural superpositions. - A. P. Cootes; Stephen H. Muggleton; R. B. Greaves; Michael J. E. Sternberg (Electron. Trans. Artif. Intell., 2001)

The Effect of Relational Background Knowledge on Learning of Protein Three-Dimensional Fold Signatures. - Marcel Turcotte; Stephen H. Muggleton; Michael J. E. Sternberg (Mach. Learn., 2001)

Predicting the Sub-Cellular Location of Proteins from Text Using Support Vector Machines. - Benjamin J. Stapley; Lawrence A. Kelley; Michael J. E. Sternberg (Pacific Symposium on Biocomputing, 2002)

Generating Protein Three-dimensional Fold Signatures using Inductive Logic Programming. - Marcel Turcotte; Stephen H. Muggleton; Michael J. E. Sternberg (Comput. Chem., 2002)

ArchDB: automated protein loop classification as a tool for structural genomics. - Jordi Espadaler; Narcis Fernandez-Fuentes; Antonio Hermoso; Enrique Querol; Francesc X. Avilés; Michael J. E. Sternberg; Baldomero Oliva (Nucleic Acids Res., 2004)

3D-GENOMICS: a database to compare structural and functional annotations of proteins between sequenced genomes. - Keiran Fleming; Arne Müller; Robert M. MacCallum; Michael J. E. Sternberg (Nucleic Acids Res., 2004)

Support Vector Inductive Logic Programming. - Stephen H. Muggleton; Huma Lodhi; Ata Amini; Michael J. E. Sternberg (Discovery Science, 2005)

Multi-class Prediction Using Stochastic Logic Programs. - Jianzhong Chen; Lawrence A. Kelley; Stephen H. Muggleton; Michael J. E. Sternberg (ILP, 2006)

Capturing expert knowledge with argumentation: a case study in bioinformatics. - Benjamin R. Jefferys; Lawrence A. Kelley; Marek J. Sergot; John Fox 001; Michael J. E. Sternberg (Bioinform., 2006)

Prediction of viable circular permutants using a graph theoretic approach. - Konrad H. Paszkiewicz; Michael J. E. Sternberg; Michael Lappe (Bioinform., 2006)

Support vector inductive logic programming outperforms the naive Bayes classifier and inductive logic programming for the classification of bioactive chemical compounds. - Edward O. Cannon; Ata Amini; Andreas Bender 002; Michael J. E. Sternberg; Stephen H. Muggleton; Robert C. Glen; John B. O. Mitchell (J. Comput. Aided Mol. Des., 2007)

A Novel Logic-Based Approach for Quantitative Toxicology Prediction. - Ata Amini; Stephen H. Muggleton; Huma Lodhi; Michael J. E. Sternberg (J. Chem. Inf. Model., 2007)

Protein Fold Discovery Using Stochastic Logic Programs. - Jianzhong Chen; Lawrence A. Kelley; Stephen H. Muggleton; Michael J. E. Sternberg (Probabilistic Inductive Logic Programming, 2008)

3D-Garden: a system for modelling protein-protein complexes based on conformational refinement of ensembles generated with the marching cubes algorithm. - Victor I. Lesk; Michael J. E. Sternberg (Bioinform., 2008)

ConFunc - functional annotation in the twilight zone. - Mark N. Wass; Michael J. E. Sternberg (Bioinform., 2008)

EMAAS: An extensible grid-based Rich Internet Application for microarray data analysis and management. - Geraint Barton; J. C. Abbott; Norie Chiba; D. W. Huang; Y. Huang; Marko Krznaric; J. Mack-Smith; A. Saleem; B. T. Sherman; Brijesh Tiwari; Christopher D. Tomlinson; Timothy J. Aitman; et al. (BMC Bioinform., 2008)

Scaffold Hopping in Drug Discovery Using Inductive Logic Programming. - Kazuhisa Tsunoyama; Ata Amini; Michael J. E. Sternberg; Stephen H. Muggleton (J. Chem. Inf. Model., 2008)

Learning Large Margin First Order Decision Lists for Multi-Class Classification. - Huma Lodhi; Stephen H. Muggleton; Michael J. E. Sternberg (Discovery Science, 2009)

Multi-Class protein fold recognition using large margin logic based divide and conquer learning. - Huma Lodhi; Stephen H. Muggleton; Michael J. E. Sternberg (SIGKDD Explor., 2009)

Variation of Background Knowledge in an Industrial Application of ILP. - Stephen H. Muggleton; Jianzhong Chen; Hiroaki Watanabe; Stuart J. Dunbar; Charles Baxter; Richard A. Currie; José Domingo Salazar; Jan Taubert; Michael J. E. Sternberg (ILP, 2010)

Sequencing delivers diminishing returns for homology detection: implications for mapping the protein universe. - Daniel Chubb; Benjamin R. Jefferys; Michael J. E. Sternberg; Lawrence A. Kelley (Bioinform., 2010)

3DLigandSite: predicting ligand-binding sites using similar structures. - Mark N. Wass; Lawrence A. Kelley; Michael J. E. Sternberg (Nucleic Acids Res., 2010)

Does Multi-Clause Learning Help in Real-World Applications? - Dianhuan Lin; Jianzhong Chen; Hiroaki Watanabe; Stephen H. Muggleton; Pooja Jain; Michael J. E. Sternberg; Charles Baxter; Richard A. Currie; Stuart J. Dunbar; Mark Earll; José Domingo Salazar (ILP, 2011)

Aligning protein-protein interaction networks using random neural networks. - Hang T. T. Phan; Michael J. E. Sternberg; Erol Gelenbe (BIBM, 2012)

PINALOG: a novel approach to align protein interaction networks - implications for complex detection and function prediction. - Hang T. T. Phan; Michael J. E. Sternberg (Bioinform., 2012)

Automated identification of protein-ligand interaction features using Inductive Logic Programming: a hexose binding case study. - José Carlos Almeida Santos; Houssam Nassif; David Page; Stephen H. Muggleton; Michael J. E. Sternberg (BMC Bioinform., 2012)

Integrating logic-based machine learning and virtual screening to discover new drugs. - Christopher Reynolds; Michael J. E. Sternberg (J. Cheminformatics, 2012)

CombFunc: predicting protein function using heterogeneous data sources. - Mark N. Wass; Geraint Barton; Michael J. E. Sternberg (Nucleic Acids Res., 2012)

AMBIENT: Active Modules for Bipartite Networks - using high-throughput transcriptomic data to dissect metabolic response. - William A. Bryant; Michael J. E. Sternberg; John W. Pinney (BMC Syst. Biol., 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)

FoldSynth: Interactive 2D/3D Visualisation Platform for Molecular Strands. - Stephen Todd; Peter Todd; Frederic Fol Leymarie; William H. Latham; Lawrence A. Kelley; Michael J. E. Sternberg; Jim Hugues; Stephen Taylor (VCBM, 2015)

AlloPred: prediction of allosteric pockets on proteins using normal mode perturbation analysis. - Joe G. Greener; Michael J. E. Sternberg (BMC Bioinform., 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)

PhenoRank: reducing study bias in gene prioritization through simulation. - Alex J. Cornish; Alessia David; Michael J. E. Sternberg (Bioinform., 2018)

Identification of disease-associated loci using machine learning for genotype and network data integration. - Luis G. Leal; Alessia David; Marjo-Riitta Järvelin; Sylvain Sebert; Minna Männikkö; Ville Karhunen; Eleanor Seaby; Clive J. Hoggart; Michael J. E. Sternberg (Bioinform., 2019)

Annotation and curation of human genomic variations: an ELIXIR Implementation Study. - Alessia David; Valérie Barbié; Marcella Attimonelli; Roberto Preste; Enni Makkonen; Heidi Marjonen; Mats R. K. Lindstedt; Kati Kristiansson; Sarah E. Hunt; Fiona Cunningham; Ilkka Lappalainen; Michael J. E. Sternberg (F1000Research, 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)

Bioblox 2.5D - Developing an Educational Game Based on Protein Docking. - Frederic Fol Leymarie; William H. Latham; Michael J. E. Sternberg; Guido Salimbeni; Suhail A. Islam; Christopher Reynolds; Charlie Cook; Luis Armas Suarez; Richard Leinfellner (CoRR, 2022)

3DLigandSite: structure-based prediction of protein-ligand binding sites. - Jake E. McGreig; Hannah Uri; Magdalena Antczak; Michael J. E. Sternberg; Martin Michaelis; Mark N. Wass (Nucleic Acids Res., 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)