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Authors: Robert Hoehndorf
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Journal Article
mOWL: Python library for machine learning with biomedical ontologies
Fernando Zhapa-Camacho and others
Bioinformatics, Volume 39, Issue 1, January 2023, btac811, https://doi.org/10.1093/bioinformatics/btac811
Published: 19 December 2022
Journal Article
DeepGOZero: improving protein function prediction from sequence and zero-shot learning based on ontology axioms
Maxat Kulmanov and Robert Hoehndorf
Bioinformatics, Volume 38, Issue Supplement_1, July 2022, Pages i238–i245, https://doi.org/10.1093/bioinformatics/btac256
Published: 27 June 2022
Journal Article
DeepSVP: integration of genotype and phenotype for structural variant prioritization using deep learning
Azza Althagafi and others
Bioinformatics, Volume 38, Issue 6, March 2022, Pages 1677–1684, https://doi.org/10.1093/bioinformatics/btab859
Published: 24 December 2021
Journal Article
DTI-Voodoo: machine learning over interaction networks and ontology-based background knowledge predicts drug–target interactions
Tilman Hinnerichs and Robert Hoehndorf
Bioinformatics, Volume 37, Issue 24, December 2021, Pages 4835–4843, https://doi.org/10.1093/bioinformatics/btab548
Published: 28 July 2021
Journal Article
DeepGOPlus: improved protein function prediction from sequence
Maxat Kulmanov and Robert Hoehndorf
Bioinformatics, Volume 37, Issue 8, March 2021, Page 1187, https://doi.org/10.1093/bioinformatics/btaa763
Published: 03 May 2021
Journal Article
DeepViral: prediction of novel virus–host interactions from protein sequences and infectious disease phenotypes
Wang Liu-Wei and others
Bioinformatics, Volume 37, Issue 17, September 2021, Pages 2722–2729, https://doi.org/10.1093/bioinformatics/btab147
Published: 03 March 2021
Journal Article
Predicting candidate genes from phenotypes, functions and anatomical site of expression
Jun Chen and others
Bioinformatics, Volume 37, Issue 6, March 2021, Pages 853–860, https://doi.org/10.1093/bioinformatics/btaa879
Published: 14 October 2020
Journal Article
Formal axioms in biomedical ontologies improve analysis and interpretation of associated data
Fatima Zohra Smaili and others
Bioinformatics, Volume 36, Issue 7, April 2020, Pages 2229–2236, https://doi.org/10.1093/bioinformatics/btz920
Published: 10 December 2019
Journal Article
DeepGOPlus: improved protein function prediction from sequence
Maxat Kulmanov and Robert Hoehndorf
Bioinformatics, Volume 36, Issue 2, January 2020, Pages 422–429, https://doi.org/10.1093/bioinformatics/btz595
Published: 27 July 2019
Journal Article
OPA2Vec: combining formal and informal content of biomedical ontologies to improve similarity-based prediction
Fatima Zohra Smaili and others
Bioinformatics, Volume 35, Issue 12, June 2019, Pages 2133–2140, https://doi.org/10.1093/bioinformatics/bty933
Published: 08 November 2018
Journal Article
Ontology-based validation and identification of regulatory phenotypes
Maxat Kulmanov and others
Bioinformatics, Volume 34, Issue 17, September 2018, Pages i857–i865, https://doi.org/10.1093/bioinformatics/bty605
Published: 08 September 2018
Journal Article
Semantic Disease Gene Embeddings (SmuDGE): phenotype-based disease gene prioritization without phenotypes
Mona Alshahrani and Robert Hoehndorf
Bioinformatics, Volume 34, Issue 17, September 2018, Pages i901–i907, https://doi.org/10.1093/bioinformatics/bty559
Published: 08 September 2018
Journal Article
Onto2Vec: joint vector-based representation of biological entities and their ontology-based annotations
Fatima Zohra Smaili and others
Bioinformatics, Volume 34, Issue 13, July 2018, Pages i52–i60, https://doi.org/10.1093/bioinformatics/bty259
Published: 27 June 2018
Journal Article
DeepGO: predicting protein functions from sequence and interactions using a deep ontology-aware classifier
Maxat Kulmanov and others
Bioinformatics, Volume 34, Issue 4, February 2018, Pages 660–668, https://doi.org/10.1093/bioinformatics/btx624
Published: 03 October 2017
Journal Article
Neuro-symbolic representation learning on biological knowledge graphs
Mona Alshahrani and others
Bioinformatics, Volume 33, Issue 17, September 2017, Pages 2723–2730, https://doi.org/10.1093/bioinformatics/btx275
Published: 25 April 2017
Journal Article
Mouse model phenotypes provide information about human drug targets
Robert Hoehndorf and others
Bioinformatics, Volume 30, Issue 5, March 2014, Pages 719–725, https://doi.org/10.1093/bioinformatics/btt613
Published: 24 October 2013
Journal Article
Identifying aberrant pathways through integrated analysis of knowledge in pharmacogenomics
Robert Hoehndorf and others
Bioinformatics, Volume 28, Issue 16, August 2012, Pages 2169–2175, https://doi.org/10.1093/bioinformatics/bts350
Published: 17 June 2012
Journal Article
Semantic integration of physiology phenotypes with an application to the Cellular Phenotype Ontology
Robert Hoehndorf and others
Bioinformatics, Volume 28, Issue 13, July 2012, Pages 1783–1789, https://doi.org/10.1093/bioinformatics/bts250
Published: 26 April 2012
Journal Article
An infrastructure for ontology-based information systems in biomedicine: RICORDO case study
Sarala M. Wimalaratne and others
Bioinformatics, Volume 28, Issue 3, February 2012, Pages 448–450, https://doi.org/10.1093/bioinformatics/btr662
Published: 29 November 2011
Journal Article
PIDO: the primary immunodeficiency disease ontology
Nico Adams and others
Bioinformatics, Volume 27, Issue 22, November 2011, Pages 3193–3199, https://doi.org/10.1093/bioinformatics/btr531
Published: 22 September 2011
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