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
Dietrich Rebholz-SchuhmannZB MED -- Information Center for Life SciencesVerified email at zbmed.de
Xin GaoProfessor, Computer Sciences; Director, Computational Bioscience Research CenterVerified email at kaust.edu.sa
Anika Cawthorn (formerly Oellrich)University College LondonVerified email at ucl.ac.uk
Frank LoebeUniversity of LeipzigVerified email at informatik.uni-leipzig.de
Luke T SlaterUniversity of BirminghamVerified email at bham.ac.uk
Núria Queralt-RosinachLeiden University Medical CenterVerified email at lumc.nl
Fatima Zohra SmailiMcGill UniversityVerified email at mail.mcgill.ca
Mona AlshahraniNational Center for Artificial Intelligence (NCAI), SDAIA, Saudi ArabiaVerified email at kaust.edu.sa
Patryk BurekPolish-Japanese Academy of Information Technology, Warsaw, PolandVerified email at informatik.uni-leipzig.de
Azza AlthagafiPh.D. in Computer Science at KAUST, Faculty Member at Taif University (TU)Verified email at kaust.edu.sa
Imane BoudelliouaKing Fahd University of Petroleum and MineralsVerified email at kfupm.edu.sa
Andreas KarwathAssociate Professor, Deputy Programme Director Health Data Science, University of Birmingham, UKVerified email at bham.ac.uk
Xiangliang ZhangAssociate Professor, Computer Science and Engineering, University of Notre DameVerified email at nd.edu
Johann VisagieBioinformatics Programmer, Max Planck Institute for Evolutionary AnthropologyVerified email at eva.mpg.de
Axel-Cyrille Ngonga NgomoProfessor of Data Science at Paderborn UniversityVerified email at upb.de
Sarah M. AlghamdiPhd student, King Abdullah UniversityVerified email at kaust.edu.sa

Robert Hoehndorf

King Abdullah University of Science and Technology

Verified email at kaust.edu.sa - Homepage

Bioinformatics 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	376	2017
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), 1-23, 2019	314	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	308	2015
DeepGOPlus: Improved protein function prediction from sequence M Kulmanov, R Hoehndorf Bioinformatics 36 (2), 422–429, 2020	289	2020
Text-mining solutions for biomedical research: enabling integrative biology D Rebholz-Schuhmann, A Oellrich, R Hoehndorf Nature Reviews Genetics 13 (12), 829-839, 2012	275	2012
PhenomeNET: a whole-phenome approach to disease gene discovery R Hoehndorf, PN Schofield, GV Gkoutos Nucleic acids research 39 (18), e119-e119, 2011	232	2011
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	230	2014
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	227	2018
Semantic similarity and machine learning with ontologies. M Kulmanov, FZ Smaili, X Gao, R Hoehndorf Briefings in Bioinformatics, 2020	154*	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	153	2017
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	138	2015
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	136	2018
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	129	2006
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	127	2019
The Units Ontology: a tool for integrating units of measurement in science GV Gkoutos, PN Schofield, R Hoehndorf Database 2012, bas033, 2012	119	2012
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	117	2018
Evaluation of research in biomedical ontologies R Hoehndorf, M Dumontier, GV Gkoutos Briefings in bioinformatics 14 (6), 696-712, 2013	110	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	107	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	104	2015
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	89	2019

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