JChemTidy: A Tool for Converting Chemical Web Document Collections to an XHTML Representation. - Georgios V. Gkoutos; Philip R. Kenway; Henry S. Rzepa (J. Chem. Inf. Comput. Sci., 2001)

Chemical Markup, XML, and the World-Wide Web. 3. Toward a Signed Semantic Chemical Web of Trust. - Georgios V. Gkoutos; Peter Murray-Rust; Henry S. Rzepa; Michael Wright (J. Chem. Inf. Comput. Sci., 2001)

Internet-based resource discovery in chemo-bioinformatics. - Georgios Vasileios Gkoutos (2002)

Chemical Machine Vision: Automated Extraction of Chemical Metadata from Raster Images. - Georgios V. Gkoutos; Henry S. Rzepa; Richard M. Clark; Osei Adjei; Harpal Johal (J. Chem. Inf. Comput. Sci., 2003)

Building Mouse Phenotype Ontologies. - Georgios V. Gkoutos; Eain C. J. Green; Ann-Marie Mallon; John M. Hancock; Duncan Davidson (Pacific Symposium on Biocomputing, 2004)

CRAVE: a database, middleware and visualization system for phenotype ontologies. - Georgios V. Gkoutos; Eain C. J. Green; Simon Greenaway; Andrew Blake 003; Ann-Marie Mallon; John M. Hancock (Bioinform., 2005)

EMPReSS: European Mouse Phenotyping Resource for Standardized Screens. - Eain C. J. Green; Georgios V. Gkoutos; Heena V. Lad; Andrew Blake 003; Joseph Weekes; John M. Hancock (Bioinform., 2005)

NLP and Phenotypes: using Ontologies to link Human Diseases to Animal Models. - Nicole L. Washington; M. Gibson; Chris Mungall; Michael Ashburner; Georgios V. Gkoutos; Monte Westerfield; Melissa A. Haendel; Suzanna E. Lewis (Ontologies and Text Mining for Life Sciences, 2008)

Towards a Disease Ontology. - Paul N. Schofield; Björn Rozell; Georgios V. Gkoutos (Anatomy Ontologies for Bioinformatics, 2008)

Finding and sharing: new approaches to registries of databases and services for the biomedical sciences. - Damian Smedley; Paul N. Schofield; Chao-Kung Chen; Vassilis Aidinis; Crysanthi Ainali; Jonathan B. L. Bard; Rudi Balling; Ewan Birney; Andrew Blake 003; Erik Bongcam-Rudloff; Anthony J. Brookes; Gianni Cesareni; et al. (Database J. Biol. Databases Curation, 2010)

An Advanced Strategy for Integration of Biological Measurement Data. - Hiroshi Masuya; Georgios V. Gkoutos; Nobuhiko Tanaka; Kazunori Waki; Yoshihiro Okuda; Tatsuya Kushida; Norio Kobayashi; Koji Doi; Kouji Kozaki; Robert Hoehndorf; Shigeharu Wakana; Tetsuro Toyoda; et al. (ICBO, 2011)

PIDO: the primary immunodeficiency disease ontology. - Nico Adams; Robert Hoehndorf; Georgios V. Gkoutos; Gesine Hansen; Christian Hennig (Bioinform., 2011)

A common layer of interoperability for biomedical ontologies based on OWL EL. - Robert Hoehndorf; Michel Dumontier; Anika Oellrich; Sarala M. Wimalaratne; Dietrich Rebholz-Schuhmann; Paul N. Schofield; Georgios V. Gkoutos (Bioinform., 2011)

Improving ontologies by automatic reasoning and evaluation of logical definitions. - Sebastian Köhler 001; Sebastian Bauer 002; Chris Mungall; Gabriele Carletti; Cynthia L. Smith; Paul N. Schofield; Georgios V. Gkoutos; Peter N. Robinson (BMC Bioinform., 2011)

Integrating systems biology models and biomedical ontologies. - Robert Hoehndorf; Michel Dumontier; John H. Gennari; Sarala M. Wimalaratne; Bernard de Bono; Daniel L. Cook; Georgios V. Gkoutos (BMC Syst. Biol., 2011)

Linking PharmGKB to Phenotype Studies and Animal Models of Disease for Drug Repurposing. - Robert Hoehndorf; Anika Oellrich; Dietrich Rebholz-Schuhmann; Paul N. Schofield; Georgios V. Gkoutos (Pacific Symposium on Biocomputing, 2012)

The Units Ontology: a tool for integrating units of measurement in science. - Georgios V. Gkoutos; Paul N. Schofield; Robert Hoehndorf (Database J. Biol. Databases Curation, 2012)

Identifying aberrant pathways through integrated analysis of knowledge in pharmacogenomics. - Robert Hoehndorf; Michel Dumontier; Georgios V. Gkoutos (Bioinform., 2012)

Semantic integration of physiology phenotypes with an application to the Cellular Phenotype Ontology. - Robert Hoehndorf; Midori A. Harris; Heinrich Herre; Gabriella Rustici; Georgios V. Gkoutos (Bioinform., 2012)

An infrastructure for ontology-based information systems in biomedicine: RICORDO case study. - Sarala M. Wimalaratne; Pierre Grenon; Robert Hoehndorf; Georgios V. Gkoutos; Bernard de Bono (Bioinform., 2012)

Ontology-based cross-species integration and analysis of Saccharomyces cerevisiae phenotypes. - Georgios V. Gkoutos; Robert Hoehndorf (J. Biomed. Semant., 2012)

Quantitative comparison of mapping methods between Human and Mammalian Phenotype Ontology. - Anika Oellrich; Georgios V. Gkoutos; Robert Hoehndorf; Dietrich Rebholz-Schuhmann (J. Biomed. Semant., 2012)

Towards quantitative measures in applied ontology - Robert Hoehndorf; Michel Dumontier; Georgios V. Gkoutos (CoRR, 2012)

Evaluation of research in biomedical ontologies. - Robert Hoehndorf; Michel Dumontier; Georgios V. Gkoutos (Briefings Bioinform., 2013)

Representing physiological processes and their participants with PhysioMaps. - Daniel L. Cook; Maxwell Lewis Neal; Robert Hoehndorf; Georgios V. Gkoutos; John H. Gennari (J. Biomed. Semant., 2013)

The Drosophila phenotype ontology. - David Osumi-Sutherland; Steven J. Marygold; Gillian H. Millburn; Peter McQuilton; Laura Ponting; Raymund Stefancsik; Kathleen Falls; Nicholas H. Brown; Georgios V. Gkoutos (J. Biomed. Semant., 2013)

The mouse pathology ontology, MPATH; structure and applications. - Paul N. Schofield; John P. Sundberg; Beth A. Sundberg; Colin McKerlie; Georgios V. Gkoutos (J. Biomed. Semant., 2013)

Aber-OWL: A Framework for Ontology-based Data Access in Biology. - Robert Hoehndorf; Luke T. Slater; Paul N. Schofield; Georgios V. Gkoutos (SWAT4LS, 2014)

Mouse model phenotypes provide information about human drug targets. - Robert Hoehndorf; Tanya Hiebert; Nigel W. Hardy; Paul N. Schofield; Georgios V. Gkoutos; Michel Dumontier (Bioinform., 2014)

The Human Phenotype Ontology project: linking molecular biology and disease through phenotype data. - Sebastian Köhler 001; Sandra C. Doelken; Christopher J. Mungall; Sebastian Bauer 002; Helen V. Firth; Isabelle Bailleul-Forestier; Graeme C. M. Black; Danielle L. Brown; Michael Brudno; Jennifer Campbell; David R. FitzPatrick; Janan T. Eppig; et al. (Nucleic Acids Res., 2014)

Using Aber-OWL for fast and scalable reasoning over BioPortal ontologies. - Luke T. Slater; Georgios V. Gkoutos; Paul N. Schofield; Robert Hoehndorf (ICBO, 2015)

AberOWL: an ontology portal with OWL EL reasoning. - Luke T. Slater; Georgios V. Gkoutos; Paul N. Schofield; Robert Hoehndorf (ICBO, 2015)

Experiences with Aber-OWL, an Ontology Repository with OWL EL Reasoning. - Luke T. Slater; Miguel Ángel Rodríguez-García; Keiron O'Shea; Paul N. Schofield; Georgios V. Gkoutos; Robert Hoehndorf (OWLED, 2015)

Visualising Ontologies with AberOWL. - Miguel Ángel Rodríguez-García; Luke T. Slater; Keiron O'Shea; Paul N. Schofield; Georgios V. Gkoutos; Robert Hoehndorf (SWAT4LS, 2015)

The role of ontologies in biological and biomedical research: a functional perspective. - Robert Hoehndorf; Paul N. Schofield; Georgios V. Gkoutos (Briefings Bioinform., 2015)

Similarity-based search of model organism, disease and drug effect phenotypes. - Robert Hoehndorf; Michael Gruenberger; Georgios V. Gkoutos; Paul N. Schofield (J. Biomed. Semant., 2015)

Large-Scale Reasoning over Functions in Biomedical Ontologies. - Robert Hoehndorf; Liam Mencel; Georgios V. Gkoutos; Paul N. Schofield (FOIS, 2016)

The Planteome Project. - Laurel Cooper; Austin Meier; Justin Elser; Justin Preece; Xu Xu; Ryan Kitchen; Botong Qu; Eugene Zhang; Sinisa Todorovic; Pankaj Jaiswal; Marie-Angélique Laporte; Elizabeth Arnaud; et al. (ICBO/BioCreative, 2016)

Updates to the AberOWL Ontology Repository. - Miguel Ángel Rodríguez-García; Luke T. Slater; Imane Boudellioua; Paul N. Schofield; Georgios V. Gkoutos; Robert Hoehndorf (ICBO/BioCreative, 2016)

To MIREOT or not to MIREOT? A Case Study of the Impact of Using MIREOT in the Experimental Factor Ontology (EFO). - Luke T. Slater; Georgios V. Gkoutos; Paul N. Schofield; Robert Hoehndorf (ICBO/BioCreative, 2016)

Integrating phenotype ontologies with PhenomeNET. - Miguel Ángel Rodríguez-García; Georgios V. Gkoutos; Paul N. Schofield; Robert Hoehndorf (OM@ISWC, 2016)

Overview of the interactive task in BioCreative V. - Qinghua Wang 003; Shabbir Syed-Abdul; Lara Almeida; Sophia Ananiadou; Yalbi I. Balderas-Martínez; Riza Batista-Navarro; David Campos 001; Lucy Chilton; Hui-Jou Chou; Gabriela Contreras; Laurel Cooper; Hong-Jie Dai; et al. (Database J. Biol. Databases Curation, 2016)

DermO; an ontology for the description of dermatologic disease. - Hannah M. Fisher; Robert Hoehndorf; Bruno S. Bazelato; Soheil S. Dadras; Lloyd E. King; Georgios V. Gkoutos; John P. Sundberg; Paul N. Schofield (J. Biomed. Semant., 2016)

The flora phenotype ontology (FLOPO): tool for integrating morphological traits and phenotypes of vascular plants. - Robert Hoehndorf; Mona Alshahrani; Georgios V. Gkoutos; George Gosline; Quentin Groom; Thomas Hamann; Jens Kattge; Sylvia Mota de Oliveira; Marco Schmidt 003; Soraya Sierra; Erik Smets; Rutger A. Vos; et al. (J. Biomed. Semant., 2016)

Using AberOWL for fast and scalable reasoning over BioPortal ontologies. - Luke T. Slater; Georgios V. Gkoutos; Paul N. Schofield; Robert Hoehndorf (J. Biomed. Semant., 2016)

Semantic prioritization of novel causative genomic variants. - Imane Boudellioua; Rozaimi B. Mahamad Razali; Maxat Kulmanov; Yasmeen Hashish; Vladimir B. Bajic; Eva Goncalves-Serra; Nadia Schoenmakers; Georgios V. Gkoutos; Paul N. Schofield; Robert Hoehndorf (PLoS Comput. Biol., 2017)

Vec2SPARQL: integrating SPARQL queries and knowledge graph embeddings. - Maxat Kulmanov; Senay Kafkas; Andreas Karwath; Alexander Malic; Georgios V. Gkoutos; Michel Dumontier; Robert Hoehndorf (SWAT4LS, 2018)

The anatomy of phenotype ontologies: principles, properties and applications. - Georgios V. Gkoutos; Paul N. Schofield; Robert Hoehndorf (Briefings Bioinform., 2018)

Ontology-based validation and identification of regulatory phenotypes. - Maxat Kulmanov; Paul N. Schofield; Georgios V. Gkoutos; Robert Hoehndorf (Bioinform., 2018)

The Planteome database: an integrated resource for reference ontologies, plant genomics and phenomics. - Laurel Cooper; Austin Meier; Marie-Angélique Laporte; Justin Elser; Chris Mungall; Brandon T. Sinn; Dario Cavaliere; Seth Carbon; Nathan A. Dunn; Barry Smith 001; Botong Qu; Justin Preece; et al. (Nucleic Acids Res., 2018)

'Computable' Phenotypes Enable Comparative and Predictive Phenomics Among Plant Species and Across Domains of Life. - Ian Braun; James P. Balhoff; Tanya Z. Berardini; Laurel Cooper; Georgios V. Gkoutos; Lisa C. Harper; Eva Huala; Pankaj Jaiswal; Toni Kazic; Hilmar Lapp; James A. Macklin; Chelsea D. Specht; et al. (Application of Semantic Technology in Biodiversity Science, 2018)

DeepPVP: phenotype-based prioritization of causative variants using deep learning. - Imane Boudellioua; Maxat Kulmanov; Paul N. Schofield; Georgios V. Gkoutos; Robert Hoehndorf (BMC Bioinform., 2019)

Aging Neuro-Behavior Ontology. - Fernando Javier Martínez Santiago; Rosario García-Viedma; John A. Williams 002; Luke T. Slater; Georgios V. Gkoutos (Appl. Ontology, 2020)

Jabberwocky: an ontology-aware toolkit for manipulating text. - Samantha C. Pendleton; Georgios V. Gkoutos (J. Open Source Softw., 2020)

Towards semantic interoperability: finding and repairing hidden contradictions in biomedical ontologies. - Luke T. Slater; Georgios V. Gkoutos; Robert Hoehndorf (BMC Medical Informatics Decis. Mak., 2020)

Exploring Sentiment as a Potential Indicator of Bias in Disease Ontologies. - Luke T. Slater; John A. Williams 002; Paul N. Schofield; Georgios V. Gkoutos (BIBM, 2021)

Exploring the Performance of Baseline Text Mining Frameworks for Early Prediction of Self Harm Over Social Media. - Tanmay Basu; Georgios V. Gkoutos (CLEF (Working Notes), 2021)

Nesterov Accelerated ADMM for Fast Diffeomorphic Image Registration. - Alexander Thorley; Xi Jia; Hyung Jin Chang; Boyang Liu; Karina Bunting; Victoria Stoll; Antonio de Marvao; Declan P. O'Regan; Georgios V. Gkoutos; Dipak Kotecha; Jinming Duan 001 (MICCAI (4), 2021)

Linking common human diseases to their phenotypes; development of a resource for human phenomics. - Senay Kafkas; Sara Althubaiti; Georgios V. Gkoutos; Robert Hoehndorf; Paul N. Schofield (J. Biomed. Semant., 2021)

Improved characterisation of clinical text through ontology-based vocabulary expansion. - Luke T. Slater; William Bradlow; Simon Ball; Robert Hoehndorf; Georgios V. Gkoutos (J. Biomed. Semant., 2021)

NFnetFu: A novel workflow for microbiome data fusion. - Vartika Bisht; Animesh Acharjee; Georgios V. Gkoutos (Comput. Biol. Medicine, 2021)

Development and application of the ocular immune-mediated inflammatory diseases ontology enhanced with synonyms from online patient support forum conversation. - Samantha C. Pendleton; Luke T. Slater; Andreas Karwath; Rose M. Gilbert; Nicola Davis; Konrad Pesudovs; Xiaoxuan Liu; Alastair K. Denniston; Georgios V. Gkoutos; Tasanee Braithwaite (Comput. Biol. Medicine, 2021)

A fast, accurate, and generalisable heuristic-based negation detection algorithm for clinical text. - Luke T. Slater; William Bradlow; Dino FA. Motti; Robert Hoehndorf; Simon Ball; Georgios V. Gkoutos (Comput. Biol. Medicine, 2021)

Towards similarity-based differential diagnostics for common diseases. - Luke T. Slater; Andreas Karwath; John A. Williams 002; Sophie Russell; Silver Makepeace; Alexander Carberry; Robert Hoehndorf; Georgios V. Gkoutos (Comput. Biol. Medicine, 2021)

Multi-faceted semantic clustering with text-derived phenotypes. - Luke T. Slater; John A. Williams 002; Andreas Karwath; Hilary Fanning; Simon Ball; Paul N. Schofield; Robert Hoehndorf; Georgios V. Gkoutos (Comput. Biol. Medicine, 2021)

Learning from learning machines: a new generation of AI technology to meet the needs of science. - Luca Pion-Tonachini; Kristofer E. Bouchard; Héctor García Martín; Sean Peisert; W. Bradley Holtz; Anil Aswani; Dipankar Dwivedi; Haruko M. Wainwright; Ghanshyam Pilania; Benjamin Nachman; Babetta L. Marrone; Nicola Falco; et al. (CoRR, 2021)

Effects of Negation and Uncertainty Stratification on Text-Derived Patient Profile Similarity. - Luke T. Slater; Andreas Karwath; Robert Hoehndorf; Georgios V. Gkoutos (Frontiers Digit. Health, 2021)

A Sentence Classification Framework to Identify Geometric Errors in Radiation Therapy from Relevant Literature. - Tanmay Basu; Simon Goldsworthy; Georgios V. Gkoutos (Inf., 2021)

Ensemble learning for poor prognosis predictions: A case study on SARS-CoV-2. - Honghan Wu; Huayu Zhang; Andreas Karwath; Zina M. Ibrahim; Ting Shi; Xin Zhang; Kun Wang; Jiaxing Sun; Kevin Dhaliwal; Daniel Bean; Victor Roth Cardoso; Kezhi Li; et al. (J. Am. Medical Informatics Assoc., 2021)

Graph characterisation using graphlet-based entropies. - Furqan Aziz; Mian Saeed Akbar; Muhammad Jawad; Abdul Haseeb Malik; Muhammad Irfan Uddin; Georgios V. Gkoutos (Pattern Recognit. Lett., 2021)

CACONET: a novel classification framework for microbial correlation networks. - Yuanwei Xu; Katrina Nash; Animesh Acharjee; Georgios V. Gkoutos (Bioinform., 2022)

Evaluating semantic similarity methods for comparison of text-derived phenotype profiles. - Luke T. Slater; Sophie Russell; Silver Makepeace; Alexander Carberry; Andreas Karwath; John A. Williams 002; Hilary Fanning; Simon Ball; Robert Hoehndorf; Georgios V. Gkoutos (BMC Medical Informatics Decis. Mak., 2022)

A survey on clinical natural language processing in the United Kingdom from 2007 to 2022. - Honghan Wu; Minhong Wang 002; Jinge Wu; Farah Francis; Yun-Hsuan Chang; Alex Shavick; Hang Dong 002; Michael Tin Chung Poon; Natalie K. Fitzpatrick; Adam P. Levine; Luke T. Slater; Alex Handy; et al. (npj Digit. Medicine, 2022)

Klarigi: Characteristic explanations for semantic biomedical data. - Luke T. Slater; John A. Williams 002; Paul N. Schofield; Sophie Russell; Samantha C. Pendleton; Andreas Karwath; Hilary Fanning; Simon Ball; Robert Hoehndorf; Georgios V. Gkoutos (Comput. Biol. Medicine, 2023)

Development of Automated Neural Network Prediction for Echocardiographic Left ventricular Ejection Fraction. - Yuting Zhang; Boyang Liu; Karina V. Bunting; David Brind; Alexander Thorley; Andreas Karwath; Wenqi Lu 001; Diwei Zhou; Xiaoxia Wang; Alastair R. Mobley; Otilia Tica; Georgios V. Gkoutos; et al. (CoRR, 2024)

Talking about diseases; developing a model of patient and public-prioritised disease phenotypes. - Karin Slater; Paul N. Schofield; James Wright; Paul Clift; Anushka Irani; William Bradlow; Furqan Aziz; Georgios V. Gkoutos (npj Digit. Medicine, 2024)

A novel generative adversarial networks modelling for the class imbalance problem in high dimensional omics data. - Samuel Cusworth; Georgios V. Gkoutos; Animesh Acharjee (BMC Medical Informatics Decis. Mak., 2024)