26 citations · 36 across the 7 of their papers we have counts for
7 papers
Automated Standardization of Legacy Biomedical Metadata Using an Ontology-Constrained LLM Agent
Josef Hardi, Martin J. O'Connor, Marcos Martinez-Romero +3
Descriptive scientific metadata in public repositories are often incomplete and inconsistent with community standards and ontologies, limiting data FAIRness. Large language models…
HuBMAP Data Portal: a resource for multimodal spatial and single-cell data of healthy human tissues
Morgan L. Turner, Thomas C. Smits, Tiffany S. Liaw +46
The NIH Human BioMolecular Atlas Program (HuBMAP) Data Portal (https://portal.hubmapconsortium.org/) serves as a comprehensive repository for multimodal, multi-scale spatial and si…
Knowledge engineering for open science: Building and deploying knowledge bases for metadata standards
Mark A. Musen, Martin J. O'Connor, Josef Hardi +1
Scientists strive to make their datasets available in open repositories, with the goal that they be findable, accessible, interoperable, and reusable (FAIR). Although it is hard fo…
Ensuring Adherence to Standards in Experiment-Related Metadata Entered Via Spreadsheets
Martin J. O'Connor, Josef Hardi, Marcos Martínez-Romero +5
Scientists increasingly recognize the importance of providing rich, standards-adherent metadata to describe their experimental results. Despite the availability of sophisticated to…
A Comprehensive Approach to Ensuring Quality in Spreadsheet-Based Metadata
Martin J. O'Connor, Marcos Martínez-Romero, Mete Ugur Akdogan +2
While scientists increasingly recognize the importance of metadata in describing their data, spreadsheets remain the preferred tool for supplying this information despite their lim…
Modeling community standards for metadata as templates makes data FAIR
Mark A. Musen, Martin J. O'Connor, Erik Schultes +3
It is challenging to determine whether datasets are findable, accessible, interoperable, and reusable (FAIR) because the FAIR Guiding Principles refer to highly idiosyncratic crite…
Using association rule mining and ontologies to generate metadata recommendations from multiple biomedical databases
Marcos Martínez-Romero, Martin J. O'Connor, Attila L. Egyedi +4
Metadata-the machine-readable descriptions of the data-are increasingly seen as crucial for describing the vast array of biomedical datasets that are currently being deposited in p…