Robert Hoehndorf

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Georgios GkoutosUniversity of Birmingham, College of Medical and Dental SciencesVerified email at bham.ac.uk
Maxat KulmanovKing Abdullah University of Science and TechnologyVerified email at kaust.edu.sa
Michel DumontierDistinguished Professor of Data Science, Maastricht UniversityVerified email at maastrichtuniversity.nl
Janet KelsoMPI EVAVerified email at eva.mpg.de
Xin GaoProfessor, Computer Sciences; Director, Computational Bioscience Research CenterVerified email at kaust.edu.sa
Dietrich Rebholz-SchuhmannZB MED -- Information Center for Life SciencesVerified email at zbmed.de
Anika Cawthorn (formerly Oellrich)University College LondonVerified email at ucl.ac.uk
Frank LoebeUniversity of LeipzigVerified email at informatik.uni-leipzig.de
Karin SlaterUniversity of BirminghamVerified email at bham.ac.uk
Fatima Zohra SmailiMcGill UniversityVerified email at mail.mcgill.ca
Núria Queralt-RosinachLeiden University Medical CenterVerified email at lumc.nl
Mona AlshahraniNational Center for Artificial Intelligence (NCAI), SDAIA, Saudi ArabiaVerified email at kaust.edu.sa
Azza AlthagafiPh.D. in Computer Science - AI - Bioinformatics, KAUST, Assistant Professor at Taif University (TU)Verified email at kaust.edu.sa
Patryk BurekPolish-Japanese Academy of Information Technology, Warsaw, PolandVerified email at informatik.uni-leipzig.de
Imane BoudelliouaVerified email at kaust.edu.sa
Sarah M. AlghamdiAssistant Professor, King Abdulaziz University, PhD Alumnus, King Abdullah University of Science andVerified email at kau.edu.sa
Xiangliang ZhangLeonard C. Bettex Collegiate Professor, Computer Science and Engineering, University of Notre DameVerified email at nd.edu
Andreas KarwathAssociate Professor, Deputy Programme Director Health Data Science, University of Birmingham, UKVerified email at bham.ac.uk
Stefan AroldProfessor of Bioscience at King Abdullah University of Science and Technology (KAUST)Verified email at kaust.edu.sa
Johann VisagieBioinformatics Programmer, Max Planck Institute for Evolutionary AnthropologyVerified email at eva.mpg.de

Robert Hoehndorf

King Abdullah University of Science and Technology

Verified email at kaust.edu.sa - Homepage

Bioinformatics Neurosymbolic AI Knowledge representation Applied Ontology


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DeepGO: Predicting protein functions from sequence and interactions using a deep ontology-aware classifier M Kulmanov, MA Khan, R Hoehndorf Bioinformatics 34 (4), 660-668, 2017	504	2017
DeepGOPlus: Improved protein function prediction from sequence M Kulmanov, R Hoehndorf Bioinformatics 36 (2), 422–429, 2020	448	2020
The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens N Zhou, Y Jiang, TR Bergquist, AJ Lee, BZ Kacsoh, AW Crocker, ... Genome biology 20, 1-23, 2019	429	2019
The role of ontologies in biological and biomedical research: a functional perspective R Hoehndorf, PN Schofield, GV Gkoutos Briefings in bioinformatics 16 (6), 1069-1080, 2015	341	2015
FoodOn: a harmonized food ontology to increase global food traceability, quality control and data integration DM Dooley, EJ Griffiths, GS Gosal, PL Buttigieg, R Hoehndorf, MC Lange, ... npj Science of Food 2 (1), 23, 2018	307	2018
Text-mining solutions for biomedical research: enabling integrative biology D Rebholz-Schuhmann, A Oellrich, R Hoehndorf Nature Reviews Genetics 13 (12), 829-839, 2012	281	2012
The Semanticscience Integrated Ontology (SIO) for biomedical research and knowledge discovery M Dumontier, CJO Baker, J Baran, A Callahan, L Chepelev, ... Journal of biomedical semantics 5, 1-11, 2014	272	2014
PhenomeNET: a whole-phenome approach to disease gene discovery R Hoehndorf, PN Schofield, GV Gkoutos Nucleic acids research 39 (18), e119-e119, 2011	250	2011
Semantic similarity and machine learning with ontologies. M Kulmanov, FZ Smaili, X Gao, R Hoehndorf Briefings in Bioinformatics, 2020	226*	2020
Neuro-symbolic representation learning on biological knowledge graphs M Alshahrani, MA Khan, O Maddouri, AR Kinjo, N Queralt-Rosinach, ... Bioinformatics 33 (17), 2723-2730, 2017	182	2017
Semi-supervised entity alignment via knowledge graph embedding with awareness of degree difference S Pei, L Yu, R Hoehndorf, X Zhang The world wide web conference, 3130-3136, 2019	175	2019
Opa2vec: combining formal and informal content of biomedical ontologies to improve similarity-based prediction FZ Smaili, X Gao, R Hoehndorf Bioinformatics 35 (12), 2133-2140, 2018	172	2018
Onto2Vec: joint vector-based representation of biological entities and their ontology-based annotations FZ Smaili, X Gao, R Hoehndorf Bioinformatics 34 (13), i52–i60, 2018	149	2018
Analysis of mammalian gene function through broad-based phenotypic screens across a consortium of mouse clinics M Hrabě de Angelis, G Nicholson, M Selloum, JK White, H Morgan, ... Nature genetics 47 (9), 969-978, 2015	149	2015
The Units Ontology: a tool for integrating units of measurement in science GV Gkoutos, PN Schofield, R Hoehndorf Database 2012, bas033, 2012	141	2012
EL Embeddings: Geometric construction of models for the Description Logic EL++ M Kulmanov, W Liu-Wei, Y Yan, R Hoehndorf Proceedings of the Twenty-Eighth International Joint Conference on …, 2019	133	2019
General Formal Ontology (GFO): A foundational ontology integrating objects and processes H Herre, B Heller, P Burek, R Hoehndorf, F Loebe, H Michalek Onto-Med Report 8, 53, 2006	132	2006
Evaluation of research in biomedical ontologies R Hoehndorf, M Dumontier, GV Gkoutos Briefings in bioinformatics 14 (6), 696-712, 2013	118	2013
Analysis of the human diseasome using phenotype similarity between common, genetic and infectious diseases R Hoehndorf, PN Schofield, GV Gkoutos Scientific reports 5 (1), 1-14, 2015	116	2015
Aber-OWL: a framework for ontology-based data access in biology R Hoehndorf, L Slater, PN Schofield, GV Gkoutos BMC bioinformatics 16, 1-9, 2015	112	2015

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