AIMC Topic: Biological Ontologies
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Using the Semantic Web for Rapid Integration of WikiPathways with Other Biological Online Data Resources.
PLoS computational biology
Jun 23, 2016
The diversity of online resources storing biological data in different formats provides a challenge for bioinformaticians to integrate and analyse their biological data. The semantic web provides a standard to facilitate knowledge integration using s...
Large scale biomedical texts classification: a kNN and an ESA-based approaches.
Journal of biomedical semantics
Jun 16, 2016
BACKGROUND: With the large and increasing volume of textual data, automated methods for identifying significant topics to classify textual documents have received a growing interest. While many efforts have been made in this direction, it still remai...
An ontology-driven, case-based clinical decision support model for removable partial denture design.
Scientific reports
Jun 14, 2016
We present the initial work toward developing a clinical decision support model for specific design of removable partial dentures (RPDs) in dentistry. We developed an ontological paradigm to represent knowledge of a patient's oral conditions and dent...
DermO; an ontology for the description of dermatologic disease.
Journal of biomedical semantics
Jun 13, 2016
BACKGROUND: There have been repeated initiatives to produce standard nosologies and terminologies for cutaneous disease, some dedicated to the domain and some part of bigger terminologies such as ICD-10. Recently, formally structured terminologies, o...
FALDO: a semantic standard for describing the location of nucleotide and protein feature annotation.
Journal of biomedical semantics
Jun 13, 2016
BACKGROUND: Nucleotide and protein sequence feature annotations are essential to understand biology on the genomic, transcriptomic, and proteomic level. Using Semantic Web technologies to query biological annotations, there was no standard that descr...
Overlap in drug-disease associations between clinical practice guidelines and drug structured product label indications.
Journal of biomedical semantics
Jun 8, 2016
BACKGROUND: Clinical practice guidelines (CPGs) recommend pharmacologic treatments for clinical conditions, and drug structured product labels (SPLs) summarize approved treatment indications. Both resources are intended to promote evidence-based medi...
Generation of open biomedical datasets through ontology-driven transformation and integration processes.
Journal of biomedical semantics
Jun 3, 2016
BACKGROUND: Biomedical research usually requires combining large volumes of data from multiple heterogeneous sources, which makes difficult the integrated exploitation of such data. The Semantic Web paradigm offers a natural technological space for d...
Ontology-based collection, representation and analysis of drug-associated neuropathy adverse events.
Journal of biomedical semantics
May 21, 2016
BACKGROUND: Neuropathy often occurs following drug treatment such as chemotherapy. Severe instances of neuropathy can result in cessation of life-saving chemotherapy treatment.
The cellular microscopy phenotype ontology.
Journal of biomedical semantics
May 18, 2016
BACKGROUND: Phenotypic data derived from high content screening is currently annotated using free-text, thus preventing the integration of independent datasets, including those generated in different biological domains, such as cell lines, mouse and ...
An ontological model of the practice transformation process.
Journal of biomedical informatics
May 10, 2016
Patient-centered medical home is defined as an approach for providing comprehensive primary care that facilitates partnerships between individual patients and their personal providers. The current state of the practice transformation process is ad ho...
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