Melissa A. Haendel
Orcid: 0000-0001-9114-8737Affiliations:
- Oregon State University, Linus Pauling Institute, Corvallis, OR, USA
- Oregon Health & Science University, Department of Medical Informatics and Clinical Epidemiology, Portland, OR, USA
According to our database1,
Melissa A. Haendel
authored at least 94 papers
between 2006 and 2024.
Collaborative distances:
Collaborative distances:
Timeline
Legend:
Book In proceedings Article PhD thesis Dataset OtherLinks
Online presence:
-
on ohsu.edu
-
on linkedin.com
-
on orcid.org
-
on id.loc.gov
On csauthors.net:
Bibliography
2024
BMC Medical Informatics Decis. Mak., December, 2024
Dynamic Retrieval Augmented Generation of Ontologies using Artificial Intelligence (DRAGON-AI).
J. Biomed. Semant., December, 2024
Structured Prompt Interrogation and Recursive Extraction of Semantics (SPIRES): a method for populating knowledge bases using zero-shot learning.
Bioinform., March, 2024
Finding Long-COVID: temporal topic modeling of electronic health records from the N3C and RECOVER programs.
npj Digit. Medicine, 2024
Predicting nutrition and environmental factors associated with female reproductive disorders using a knowledge graph and random forests.
Int. J. Medical Informatics, 2024
CoRR, 2024
2023
The Environmental Conditions, Treatments, and Exposures Ontology (ECTO): connecting toxicology and exposure to human health and beyond.
J. Biomed. Semant., December, 2023
An open natural language processing (NLP) framework for EHR-based clinical research: a case demonstration using the National COVID Cohort Collaborative (N3C).
J. Am. Medical Informatics Assoc., November, 2023
De-black-boxing health AI: demonstrating reproducible machine learning computable phenotypes using the N3C-RECOVER Long COVID model in the <i>All of Us</i> data repository.
J. Am. Medical Informatics Assoc., June, 2023
Biomonitoring and precision health in deep space supported by artificial intelligence.
Nat. Mac. Intell., March, 2023
Biological research and self-driving labs in deep space supported by artificial intelligence.
Nat. Mac. Intell., March, 2023
npj Digit. Medicine, 2023
Clinical encounter heterogeneity and methods for resolving in networked EHR data: a study from N3C and RECOVER programs.
J. Am. Medical Informatics Assoc., 2023
Dynamic Retrieval Augmented Generation of Ontologies using Artificial Intelligence (DRAGON-AI).
CoRR, 2023
2022
Demonstrating an approach for evaluating synthetic geospatial and temporal epidemiologic data utility: results from analyzing >1.8 million SARS-CoV-2 tests in the United States National COVID Cohort Collaborative (N3C).
J. Am. Medical Informatics Assoc., 2022
Synergies between centralized and federated approaches to data quality: a report from the national COVID cohort collaborative.
J. Am. Medical Informatics Assoc., 2022
Harmonizing units and values of quantitative data elements in a very large nationally pooled electronic health record (EHR) dataset.
J. Am. Medical Informatics Assoc., 2022
CoRR, 2022
Ontology Development Kit: a toolkit for building, maintaining, and standardising biomedical ontologies.
CoRR, 2022
Biolink Model: A Universal Schema for Knowledge Graphs in Clinical, Biomedical, and Translational Science.
CoRR, 2022
Ontology Development Kit: a toolkit for building, maintaining and standardizing biomedical ontologies.
Database J. Biol. Databases Curation, 2022
Database J. Biol. Databases Curation, 2022
Proceedings of the International Conference on Biomedical Ontology 2022 (ICBO), Ann Arbor, Michigan, USA, September 25, 2022
From Survey to Ontology, the Challenges and Opportunities in Ontologizing Questions and Answers.
Proceedings of the International Conference on Biomedical Ontology 2022 (ICBO), Ann Arbor, Michigan, USA, September 25, 2022
Analyzing historical diagnosis code data from NIH N3C and RECOVER Programs using deep learning to determine risk factors for Long Covid.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2022
2021
KG-COVID-19: A Framework to Produce Customized Knowledge Graphs for COVID-19 Response.
Patterns, 2021
The National COVID Cohort Collaborative (N3C): Rationale, design, infrastructure, and deployment.
J. Am. Medical Informatics Assoc., 2021
Beyond Low Earth Orbit: Biological Research, Artificial Intelligence, and Self-Driving Labs.
CoRR, 2021
Beyond Low Earth Orbit: Biomonitoring, Artificial Intelligence, and Precision Space Health.
CoRR, 2021
An Open Natural Language Processing Development Framework for EHR-based Clinical Research: A case demonstration using the National COVID Cohort Collaborative (N3C).
CoRR, 2021
Database J. Biol. Databases Curation, 2021
The landscape of nutri-informatics: a review of current resources and challenges for integrative nutrition research.
Database J. Biol. Databases Curation, 2021
Proceedings of the International Conference on Biomedical Ontologies 2021 co-located with the Workshop on Ontologies for the Behavioural and Social Sciences (OntoBess 2021) as part of the Bolzano Summer of Knowledge (BOSK 2021), 2021
The Linked Data Modeling Language (LinkML): A General-Purpose Data Modeling Framework Grounded in Machine-Readable Semantics.
Proceedings of the International Conference on Biomedical Ontologies 2021 co-located with the Workshop on Ontologies for the Behavioural and Social Sciences (OntoBess 2021) as part of the Bolzano Summer of Knowledge (BOSK 2021), 2021
A Semantic Model Leveraging Pattern-based Ontology Terms to Bridge Environmental Exposures and Health Outcomes.
Proceedings of the International Conference on Biomedical Ontologies 2021 co-located with the Workshop on Ontologies for the Behavioural and Social Sciences (OntoBess 2021) as part of the Bolzano Summer of Knowledge (BOSK 2021), 2021
2020
PLoS Comput. Biol., 2020
The Monarch Initiative in 2019: an integrative data and analytic platform connecting phenotypes to genotypes across species.
Nucleic Acids Res., 2020
Structuring, reuse and analysis of electronic dental data using the Oral Health and Disease Ontology.
J. Biomed. Semant., 2020
Proceedings of the 11th International Conference on Biomedical Ontologies (ICBO) joint with the 10th Workshop on Ontologies and Data in Life Sciences (ODLS) and part of the Bolzano Summer of Knowledge (BoSK 2020), 2020
Global research consortia and data harmonization projects drive the clinical interpretation of cancers.
Proceedings of the AMIA 2020, 2020
2019
Semantic integration of clinical laboratory tests from electronic health records for deep phenotyping and biomarker discovery.
npj Digit. Medicine, 2019
Nucleic Acids Res., 2019
Representing glycophenotypes: semantic unification of glycobiology resources for disease discovery.
Database J. Biol. Databases Curation, 2019
Proceedings of Workshop on Research Objects (RO2019), 2019
2018
Proceedings of Workshop on Research Objects (RO2018), 2018
Expanding the Molecular Glycophenotype Ontology to include model organisms and acquired diseases.
Proceedings of the 9th International Conference on Biological Ontology (ICBO 2018), 2018
2017
The Monarch Initiative: an integrative data and analytic platform connecting phenotypes to genotypes across species.
Nucleic Acids Res., 2017
Database J. Biol. Databases Curation, 2017
Aligning the Human Phenotype and Mammalian Phenotype Ontology using Dead Simple Ontology Design Patterns.
Proceedings of the 8th International Conference on Biomedical Ontology (ICBO 2017), Newcastle-upon-Tyne, United Kingdom, September 13th, 2017
Proceedings of the 8th International Conference on Biomedical Ontology (ICBO 2017), Newcastle-upon-Tyne, United Kingdom, September 13th, 2017
2016
Neuroinformatics, 2016
The Cell Ontology 2016: enhanced content, modularization, and ontology interoperability.
J. Biomed. Semant., 2016
Proceedings of the Biocomputing 2016: Proceedings of the Pacific Symposium, 2016
Enhancing SciENcv through Semantic Research Profile Integration with the VIVO-ISF Ontology.
Proceedings of the Joint International Conference on Biological Ontology and BioCreative, 2016
Proceedings of the Joint International Conference on Biological Ontology and BioCreative, 2016
Proceedings of the Joint International Conference on Biological Ontology and BioCreative, 2016
Proceedings of the Joint International Conference on Biological Ontology and BioCreative, 2016
Gold-Standard Ontology-Based Annotation of Concepts in Biomedical Text in the CRAFT Corpus: Updates and Extensions.
Proceedings of the Joint International Conference on Biological Ontology and BioCreative, 2016
2015
PeerJ Prepr., 2015
Summarizing and visualizing structural changes during the evolution of biomedical ontologies using a Diff Abstraction Network.
J. Biomed. Informatics, 2015
2014
The Human Phenotype Ontology project: linking molecular biology and disease through phenotype data.
Nucleic Acids Res., 2014
J. Am. Medical Informatics Assoc., 2014
J. Biomed. Semant., 2014
The zebrafish anatomy and stage ontologies: representing the anatomy and development of Danio rerio.
J. Biomed. Semant., 2014
The influence of disease categories on gene candidate predictions from model organism phenotypes.
J. Biomed. Semant., 2014
J. Biomed. Semant., 2014
Unification of multi-species vertebrate anatomy ontologies for comparative biology in Uberon.
J. Biomed. Semant., 2014
Nose to tail, roots to shoots: spatial descriptors for phenotypic diversity in the Biological Spatial Ontology.
J. Biomed. Semant., 2014
2013
Ontology based molecular signatures for immune cell types via gene expression analysis.
BMC Bioinform., 2013
An overview of the BioCreative 2012 Workshop Track III: interactive text mining task.
Database J. Biol. Databases Curation, 2013
Proceedings of the 4th International Conference on Biomedical Ontology, 2013
eagle-i: ontology-driven federated search and data entry tools for discovering biomedical research resources.
Proceedings of the 4th International Conference on Biomedical Ontology, 2013
Proceedings of the 4th International Conference on Biomedical Ontology, 2013
Alignment of Cultured Cell Modeling Across OBO Foundry Ontologies: Key Outcomes, Insights.
Proceedings of the 4th International Conference on Biomedical Ontology, 2013
What's in a Genotype?: An Ontological Characterization for Integration of Genetic Variation Data.
Proceedings of the 4th International Conference on Biomedical Ontology, 2013
2012
Database J. Biol. Databases Curation, 2012
2011
Developing an Application Ontology for Biomedical Resource Annotation and Retrieval: Challenges and Lessons Learned.
Proceedings of the 2nd International Conference on Biomedical Ontology, 2011
Proceedings of the 2nd International Conference on Biomedical Ontology, 2011
An Ontology-Based Approach to Linking Model Organisms and Resources to Human Diseases.
Proceedings of the 2nd International Conference on Biomedical Ontology, 2011
Aligning Research Resource and Researcher Representation: The eagle-i and VIVO Use Case.
Proceedings of the 2nd International Conference on Biomedical Ontology, 2011
Proceedings of the 2nd International Conference on Biomedical Ontology, 2011
2008
Proceedings of the Anatomy Ontologies for Bioinformatics, Principles and Practice, 2008
The Zebrafish Information Network: the zebrafish model organism database provides expanded support for genotypes and phenotypes.
Nucleic Acids Res., 2008
Proceedings of the Ontologies and Text Mining for Life Sciences: Current Status and Future Perspectives, 24.03., 2008
2007
2006
Nucleic Acids Res., 2006