# | Title | Journal | Year | Citations |
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1 | The environment ontology: contextualising biological and biomedical entities | Journal of Biomedical Semantics | 2013 | 244 |
2 | Modeling biomedical experimental processes with OBI | Journal of Biomedical Semantics | 2010 | 207 |
3 | The Cell Ontology 2016: enhanced content, modularization, and ontology interoperability | Journal of Biomedical Semantics | 2016 | 201 |
4 | The environment ontology in 2016: bridging domains with increased scope, semantic density, and interoperation | Journal of Biomedical Semantics | 2016 | 173 |
5 | Clinical Natural Language Processing in languages other than English: opportunities and challenges | Journal of Biomedical Semantics | 2018 | 154 |
6 | Extraction of potential adverse drug events from medical case reports | Journal of Biomedical Semantics | 2012 | 147 |
7 | The Semanticscience Integrated Ontology (SIO) for biomedical research and knowledge discovery | Journal of Biomedical Semantics | 2014 | 138 |
8 | Unification of multi-species vertebrate anatomy ontologies for comparative biology in Uberon | Journal of Biomedical Semantics | 2014 | 121 |
9 | CiTO, the Citation Typing Ontology | Journal of Biomedical Semantics | 2010 | 98 |
10 | BioLemmatizer: a lemmatization tool for morphological processing of biomedical text | Journal of Biomedical Semantics | 2012 | 97 |
11 | OAE: The Ontology of Adverse Events | Journal of Biomedical Semantics | 2014 | 94 |
12 | An open annotation ontology for science on web 3.0 | Journal of Biomedical Semantics | 2011 | 93 |
13 | CLO: The cell line ontology | Journal of Biomedical Semantics | 2014 | 89 |
14 | The Semantic Automated Discovery and Integration (SADI) Web service Design-Pattern, API and Reference Implementation | Journal of Biomedical Semantics | 2011 | 88 |
15 | OMG U got flu? Analysis of shared health messages for bio-surveillance | Journal of Biomedical Semantics | 2011 | 85 |
16 | Automatic extraction of semantic relations between medical entities: a rule based approach | Journal of Biomedical Semantics | 2011 | 84 |
17 | The pathway ontology – updates and applications | Journal of Biomedical Semantics | 2014 | 83 |
18 | Annotation Analysis for Testing Drug Safety Signals using Unstructured Clinical Notes | Journal of Biomedical Semantics | 2012 | 81 |
19 | Optimization on machine learning based approaches for sentiment analysis on HPV vaccines related tweets | Journal of Biomedical Semantics | 2017 | 78 |
20 | Micropublications: a semantic model for claims, evidence, arguments and annotations in biomedical communications | Journal of Biomedical Semantics | 2014 | 77 |
21 | Evolving BioAssay Ontology (BAO): modularization, integration and applications | Journal of Biomedical Semantics | 2014 | 75 |
22 | The Translational Medicine Ontology and Knowledge Base: driving personalized medicine by bridging the gap between bench and bedside | Journal of Biomedical Semantics | 2011 | 68 |
23 | PAV ontology: provenance, authoring and versioning | Journal of Biomedical Semantics | 2013 | 64 |
24 | Synonym extraction and abbreviation expansion with ensembles of semantic spaces | Journal of Biomedical Semantics | 2014 | 63 |
25 | eNanoMapper: harnessing ontologies to enable data integration for nanomaterial risk assessment | Journal of Biomedical Semantics | 2015 | 63 |
26 | Drug target ontology to classify and integrate drug discovery data | Journal of Biomedical Semantics | 2017 | 63 |
27 | Building a drug ontology based on RxNorm and other sources | Journal of Biomedical Semantics | 2013 | 60 |
28 | DMTO: a realistic ontology for standard diabetes mellitus treatment | Journal of Biomedical Semantics | 2018 | 60 |
29 | The Drosophila anatomy ontology | Journal of Biomedical Semantics | 2013 | 59 |
30 | NCBO Ontology Recommender 2.0: an enhanced approach for biomedical ontology recommendation | Journal of Biomedical Semantics | 2017 | 59 |
31 | MeSH Now: automatic MeSH indexing at PubMed scale via learning to rank | Journal of Biomedical Semantics | 2017 | 57 |
32 | The eXtensible ontology development (XOD) principles and tool implementation to support ontology interoperability | Journal of Biomedical Semantics | 2018 | 57 |
33 | The Software Ontology (SWO): a resource for reproducibility in biomedical data analysis, curation and digital preservation | Journal of Biomedical Semantics | 2014 | 56 |
34 | MIRO: guidelines for minimum information for the reporting of an ontology | Journal of Biomedical Semantics | 2018 | 55 |
35 | Building a biomedical ontology recommender web service | Journal of Biomedical Semantics | 2010 | 54 |
36 | Mining of vaccine-associated IFN-γ gene interaction networks using the Vaccine Ontology | Journal of Biomedical Semantics | 2011 | 54 |
37 | Expanding the mammalian phenotype ontology to support automated exchange of high throughput mouse phenotyping data generated by large-scale mouse knockout screens | Journal of Biomedical Semantics | 2015 | 54 |
38 | Disjunctive shared information between ontology concepts: application to Gene Ontology | Journal of Biomedical Semantics | 2011 | 53 |
39 | Semantics-based composition of EMBOSS services | Journal of Biomedical Semantics | 2011 | 53 |
40 | The zebrafish anatomy and stage ontologies: representing the anatomy and development of Danio rerio | Journal of Biomedical Semantics | 2014 | 53 |
41 | 12 years on – Is the NLM medical text indexer still useful and relevant? | Journal of Biomedical Semantics | 2017 | 53 |
42 | Ontology representation and analysis of vaccine formulation and administration and their effects on vaccine immune responses | Journal of Biomedical Semantics | 2012 | 51 |
43 | Neuroanatomical domain of the foundational model of anatomy ontology | Journal of Biomedical Semantics | 2014 | 50 |
44 | Semantic annotation in biomedicine: the current landscape | Journal of Biomedical Semantics | 2017 | 50 |
45 | GOMMA: a component-based infrastructure for managing and analyzing life science ontologies and their evolution | Journal of Biomedical Semantics | 2011 | 49 |
46 | A common type system for clinical natural language processing | Journal of Biomedical Semantics | 2013 | 47 |
47 | BioHackathon series in 2011 and 2012: penetration of ontology and linked data in life science domains | Journal of Biomedical Semantics | 2014 | 47 |
48 | EMAP/EMAPA ontology of mouse developmental anatomy: 2013 update | Journal of Biomedical Semantics | 2013 | 46 |
49 | Introducing glycomics data into the Semantic Web | Journal of Biomedical Semantics | 2013 | 46 |
50 | Moonstone: a novel natural language processing system for inferring social risk from clinical narratives | Journal of Biomedical Semantics | 2019 | 46 |