PloS one
Apr 29, 2016
The Ontology for Biomedical Investigations (OBI) is an ontology that provides terms with precisely defined meanings to describe all aspects of how investigations in the biological and medical domains are conducted. OBI re-uses ontologies that provide...
IEEE/ACM transactions on computational biology and bioinformatics
Oct 26, 2015
The Encyclopedia of DNA Elements (ENCODE) is a huge and still expanding public repository of more than 4,000 experiments and 25,000 data files, assembled by a large international consortium since 2007; unknown biological knowledge can be extracted fr...
Studies in health technology and informatics
May 15, 2025
The significance of Findable, Accessible, Interoperable, and Reusable (FAIR) data is increasing, particularly in the context of enhancing data reuse in research. The National Research Data Infrastructure for Personal Health Data (NFDI4Health) aims to...
Cell genomics
May 14, 2025
Metadata, or "data about data," is essential for organizing, understanding, and managing large-scale omics datasets. It enhances data discovery, integration, and interpretation, enabling reproducibility, reusability, and secondary analysis. However, ...
Database : the journal of biological databases and curation
Nov 28, 2024
There is an ongoing need for scalable tools to aid researchers in both retrospective and prospective standardization of discrete entity types-such as disease names, cell types, or chemicals-that are used in metadata associated with biomedical data. W...
Briefings in bioinformatics
Nov 22, 2024
Reusing massive collections of publicly available biomedical data can significantly impact knowledge discovery. However, these public samples and studies are typically described using unstructured plain text, hindering the findability and further reu...
Database : the journal of biological databases and curation
Sep 27, 2024
Advanced omics technologies and facilities generate a wealth of valuable data daily; however, the data often lack the essential metadata required for researchers to find, curate, and search them effectively. The lack of metadata poses a significant c...
Sheng wu yi xue gong cheng xue za zhi = Journal of biomedical engineering = Shengwu yixue gongchengxue zazhi
Aug 25, 2024
High-grade serous ovarian cancer has a high degree of malignancy, and at detection, it is prone to infiltration of surrounding soft tissues, as well as metastasis to the peritoneum and lymph nodes, peritoneal seeding, and distant metastasis. Whether ...
Journal of the American Medical Informatics Association : JAMIA
Jun 20, 2024
OBJECTIVE: Leverage electronic health record (EHR) audit logs to develop a machine learning (ML) model that predicts which notes a clinician wants to review when seeing oncology patients.
Bioinformatics (Oxford, England)
Mar 4, 2024
SUMMARY: Python is the most commonly used language for deep learning (DL). Existing Python packages for mass spectrometry imaging (MSI) data are not optimized for DL tasks. We, therefore, introduce pyM2aia, a Python package for MSI data analysis with...