Expression Atlas update - a database of gene and transcript expression from microarray- and sequencing-based functional genomics experiments. - Robert Petryszak; Tony Burdett; Benedetto Fiorelli; Nuno A. Fonseca; Mar Gonzalez-Porta; Emma Hastings; Wolfgang Huber; Simon Jupp; Maria Keays; Nataliya Kryvych; Julie A. McMurry; John C. Marioni; et al. (Nucleic Acids Res., 2014)

The Human Phenotype Ontology in 2017. - Sebastian Köhler 001; Nicole A. Vasilevsky; Mark Engelstad; Erin Foster; Julie A. McMurry; Ségolène Aymé; Gareth Baynam; Susan M. Bello; Cornelius F. Boerkoel; Kym M. Boycott; Michael Brudno; Orion J. Buske; et al. (Nucleic Acids Res., 2017)

The Monarch Initiative: an integrative data and analytic platform connecting phenotypes to genotypes across species. - Christopher J. Mungall; Julie A. McMurry; Sebastian Köhler 001; James P. Balhoff; Charles D. Borromeo; Matthew H. Brush; Seth Carbon; Tom Conlin; Nathan A. Dunn; Mark Engelstad; Erin Foster; Jean-Philippe F. Gourdine; et al. (Nucleic Acids Res., 2017)

Representing glycophenotypes: semantic unification of glycobiology resources for disease discovery. - Jean-Philippe F. Gourdine; Matthew H. Brush; Nicole A. Vasilevsky; Kent A. Shefchek; Sebastian Köhler 001; Nicolas Matentzoglu; Monica C. Munoz-Torres; Julie A. McMurry; Xingmin Aaron Zhang; Peter N. Robinson; Melissa A. Haendel (Database J. Biol. Databases Curation, 2019)

Expansion of the Human Phenotype Ontology (HPO) knowledge base and resources. - Sebastian Köhler 001; Leigh Carmody; Nicole A. Vasilevsky; Julius O. B. Jacobsen; Daniel Danis; Jean-Philippe F. Gourdine; Michael A. Gargano; Nomi L. Harris; Nicolas Matentzoglu; Julie A. McMurry; David Osumi-Sutherland; Valentina Cipriani; et al. (Nucleic Acids Res., 2019)

The Monarch Initiative in 2019: an integrative data and analytic platform connecting phenotypes to genotypes across species. - Kent A. Shefchek; Nomi L. Harris; Michael A. Gargano; Nicolas Matentzoglu; Deepak R. Unni; Matthew H. Brush; Dan Keith; Tom Conlin; Nicole A. Vasilevsky; Xingmin Aaron Zhang; James P. Balhoff; Larry Babb; et al. (Nucleic Acids Res., 2020)

The landscape of nutri-informatics: a review of current resources and challenges for integrative nutrition research. - Lauren E. Chan; Nicole A. Vasilevsky; Anne E. Thessen; Julie A. McMurry; Melissa A. Haendel (Database J. Biol. Databases Curation, 2021)

The Human Phenotype Ontology in 2021. - Sebastian Köhler 001; Michael A. Gargano; Nicolas Matentzoglu; Leigh Carmody; David Lewis-Smith; Nicole A. Vasilevsky; Daniel Danis; Ganna Balagura; Gareth Baynam; Amy M. Brower; Tiffany J. Callahan; Christopher G. Chute; et al. (Nucleic Acids Res., 2021)

A Simple Standard for Sharing Ontological Mappings (SSSOM). - Nicolas Matentzoglu; James P. Balhoff; Susan M. Bello; Chris Bizon; Matthew H. Brush; Tiffany J. Callahan; Christopher G. Chute; William D. Duncan; Chris T. A. Evelo; Davera Gabriel; John B. Graybeal; Alasdair J. G. Gray; et al. (Database J. Biol. Databases Curation, 2022)

Ontology Development Kit: a toolkit for building, maintaining and standardizing biomedical ontologies. - Nicolas Matentzoglu; Damien Goutte-Gattat; Shawn Zheng Kai Tan; James P. Balhoff; Seth Carbon; Anita R. Caron; William D. Duncan; Joe E. Flack; Melissa A. Haendel; Nomi L. Harris; William R. Hogan; Charles Tapley Hoyt; et al. (Database J. Biol. Databases Curation, 2022)

Ontology Development Kit: a toolkit for building, maintaining, and standardising biomedical ontologies. - Nicolas Matentzoglu; Damien Goutte-Gattat; Shawn Zheng Kai Tan; James P. Balhoff; Seth Carbon; Anita R. Caron; William D. Duncan; Joe E. Flack; Melissa A. Haendel; Nomi L. Harris; William R. Hogan; Charles Tapley Hoyt; et al. (CoRR, 2022)

Synergies between centralized and federated approaches to data quality: a report from the national COVID cohort collaborative. - Emily R. Pfaff; Andrew T. Girvin; Davera Gabriel; Kristin Kostka; Michele Morris; Matvey B. Palchuk; Harold P. Lehmann; Benjamin R. C. Amor; Mark Bissell; Katie R. Bradwell; Sigfried Gold; Stephanie S. Hong; et al. (J. Am. Medical Informatics Assoc., 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). - Jason A. Thomas; Randi E. Foraker; Noa Zamstein; Jon D. Morrow; Philip R. O. Payne; Adam B. Wilcox; Melissa A. Haendel; Christopher G. Chute; Kenneth R. Gersing; Anita Walden; Tellen D. Bennett; David A. Eichmann; et al. (J. Am. Medical Informatics Assoc., 2022)

The Environmental Conditions, Treatments, and Exposures Ontology (ECTO): connecting toxicology and exposure to human health and beyond. - Lauren E. Chan; Anne E. Thessen; William D. Duncan; Nicolas Matentzoglu; Charles Schmitt; Cynthia J. Grondin; Nicole A. Vasilevsky; Julie A. McMurry; Peter N. Robinson; Christopher J. Mungall; Melissa A. Haendel (J. Biomed. Semant., 2023)

Finding Long-COVID: temporal topic modeling of electronic health records from the N3C and RECOVER programs. - Shawn T. O'Neil; Charisse R. Madlock-Brown; Kenneth Wilkins; Brenda M. McGrath; Hannah E. Davis; Gina S. Assaf; Hannah Wei; Parya Zareie; Evan T. French; Johanna Loomba; Julie A. McMurry; Andrea Zhou; et al. (npj Digit. Medicine, 2024)

National COVID Cohort Collaborative data enhancements: a path for expanding common data models. - Kellie M. Walters; Marshall Clark; Sofia Dard; Stephanie S. Hong; Elizabeth Kelly; Kristin Kostka; Adam M. Lee; Robert T. Miller; Michele Morris; Matvey B. Palchuk; Emily R. Pfaff; Adam B. Wilcox; et al. (J. Am. Medical Informatics Assoc., 2025)