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- 1From: Journal of Biomedical Semantics. (Vol. 10, Issue 1) Peer-ReviewedBackground A Cardiac-centered Frailty Ontology can be an important foundation for using NLP to assess patient frailty. Frailty is an important consideration when making patient treatment decisions, particularly in...
- 2From: Journal of Biomedical Semantics. (Vol. 10, Issue 1) Peer-ReviewedBackground Cell tracking experiments, based on time-lapse microscopy, have become an important tool in biomedical research. The goal is the reconstruction of cell migration patterns, shape and state changes, and,...
- 3From: Journal of Biomedical Semantics. (Vol. 10, Issue Suppl 1) Peer-ReviewedBackground Significant amounts of health data are stored as free-text within clinical reports, letters, discharge summaries and notes. Busy clinicians have limited time to read such large amounts of free-text and are...
- 4From: Journal of Biomedical Semantics. (Vol. 12, Issue 1) Peer-ReviewedBackground Biomedical ontologies contain a wealth of metadata that constitutes a fundamental infrastructural resource for text mining. For several reasons, redundancies exist in the ontology ecosystem, which lead to...
- 5From: Journal of Biomedical Semantics. (Vol. 13, Issue 1) Peer-ReviewedBackground The COVID-19 pandemic has challenged healthcare systems and research worldwide. Data is collected all over the world and needs to be integrated and made available to other researchers quickly. However, the...
- 6From: Journal of Biomedical Semantics. (Vol. 13, Issue 1) Peer-ReviewedBackground Ontology matching should contribute to the interoperability aspect of FAIR data (Findable, Accessible, Interoperable, and Reusable). Multiple data sources can use different ontologies for annotating their...
- 7From: Journal of Biomedical Semantics. (Vol. 14, Issue 1) Peer-ReviewedBackground This paper proposes Cyrus, a new transparency evaluation framework, for Open Knowledge Extraction (OKE) systems. Cyrus is based on the state-of-the-art transparency models and linked data quality assessment...
- 8From: Journal of Biomedical Semantics. (Vol. 12, Issue 1) Peer-ReviewedBackground Effective response to public health emergencies, such as we are now experiencing with COVID-19, requires data sharing across multiple disciplines and data systems. Ontologies offer a powerful data sharing...
- 9From: Journal of Biomedical Semantics. (Vol. 13, Issue 1) Peer-ReviewedBackground Drug repurposing can improve the return of investment as it finds new uses for existing drugs. Literature-based analyses exploit factual knowledge on drugs and diseases, e.g. from databases, and combine it...
- 10From: Journal of Biomedical Semantics. (Vol. 2, Issue Suppl 2) Peer-ReviewedBackground Interferon-gamma (IFN-[gamma]) is vital in vaccine-induced immune defense against bacterial and viral infections and tumor. Our recent study demonstrated the power of a literature-based discovery method in...
- 11From: Journal of Biomedical Semantics. (Vol. 14, Issue 1) Peer-ReviewedWith the capacity to produce and record data electronically, Scientific research and the data associated with it have grown at an unprecedented rate. However, despite a decent amount of data now existing in an electronic...
- 12From: Journal of Biomedical Semantics. (Vol. 14, Issue 1) Peer-ReviewedBackground Ontologies play a key role in the management of medical knowledge because they have the properties to support a wide range of knowledge-intensive tasks. The dynamic nature of knowledge requires frequent...
- 13From: Journal of Biomedical Semantics. (Vol. 12, Issue 1) Peer-ReviewedBackground The activation degree of the orbitofrontal cortex (OFC) functional area in drug abusers is directly related to the craving for drugs and the tolerance to punishment. Currently, among the clinical research on...
- 14From: Journal of Biomedical Semantics. (Vol. 13, Issue 1) Peer-ReviewedAuthor(s): Samar Binkheder1,2 , Heng-Yi Wu3 , Sara K. Quinney4 , Shijun Zhang5 , Md. Muntasir Zitu5 , Chien-Wei Chiang5 , Lei Wang5 , Josette Jones1 and Lang Li5,6 Correction: J Biomed Semantics 13, 17 (2022)...
- 15From: Journal of Biomedical Semantics. (Vol. 2, Issue Suppl 2) Peer-ReviewedBackground Hypotheses are now being automatically produced on an industrial scale by computers in biology, e.g. the annotation of a genome is essentially a large set of hypotheses generated by sequence similarity...
- 16From: Journal of Biomedical Semantics. (Vol. 10, Issue Suppl 1) Peer-ReviewedBackground Deep Learning opens up opportunities for routinely scanning large bodies of biomedical literature and clinical narratives to represent the meaning of biomedical and clinical terms. However, the validation...
- 17From: Journal of Biomedical Semantics. (Vol. 12, Issue 1) Peer-ReviewedBackground Recent advances in representation learning have enabled large strides in natural language understanding; However, verbal reasoning remains a challenge for state-of-the-art systems. External sources of...
- 18From: Journal of Biomedical Semantics. (Vol. 13, Issue 1) Peer-ReviewedBackground The evidence-based medicine paradigm requires the ability to aggregate and compare outcomes of interventions across different trials. This can be facilitated and partially automatized by information...
- 19From: Journal of Biomedical Semantics. (Vol. 2, Issue Suppl 2) Peer-ReviewedBackground Key to the success of e-Science is the ability to computationally evaluate expert-composed hypotheses for validity against experimental data. Researchers face the challenge of collecting, evaluating and...
- 20From: Journal of Biomedical Semantics. (Vol. 13, Issue 1) Peer-ReviewedBackground The Vaccine Ontology (VO) is a biomedical ontology that standardizes vaccine annotation. Errors in VO will affect a multitude of applications that it is being used in. Quality assurance of VO is imperative...