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Knowledge Bases

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Chemogenomics knowledgebase and systems pharmacology for hallucinogen target identification-Salvinorin A as a case study.

Journal of molecular graphics & modelling
Drug abuse is a serious problem worldwide. Recently, hallucinogens have been reported as a potential preventative and auxiliary therapy for substance abuse. However, the use of hallucinogens as a drug abuse treatment has potential risks, as the funda...

Publication, discovery and interoperability of Clinical Decision Support Systems: A Linked Data approach.

Journal of biomedical informatics
BACKGROUND: The high costs involved in the development of Clinical Decision Support Systems (CDSS) make it necessary to share their functionality across different systems and organizations. Service Oriented Architectures (SOA) have been proposed to a...

An ontology-driven, case-based clinical decision support model for removable partial denture design.

Scientific reports
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...

A knowledge base for tracking the impact of genomics on population health.

Genetics in medicine : official journal of the American College of Medical Genetics
PURPOSE: We created an online knowledge base (the Public Health Genomics Knowledge Base (PHGKB)) to provide systematically curated and updated information that bridges population-based research on genomics with clinical and public health applications...

TaggerOne: joint named entity recognition and normalization with semi-Markov Models.

Bioinformatics (Oxford, England)
MOTIVATION: Text mining is increasingly used to manage the accelerating pace of the biomedical literature. Many text mining applications depend on accurate named entity recognition (NER) and normalization (grounding). While high performing machine le...

A knowledge-based approach for predicting gene-disease associations.

Bioinformatics (Oxford, England)
MOTIVATION: Recent advances of next-generation sequence technologies have made it possible to rapidly and inexpensively identify gene variations. Knowing the disease association of these gene variations is important for early intervention to treat de...

The BioHub Knowledge Base: Ontology and Repository for Sustainable Biosourcing.

Journal of biomedical semantics
BACKGROUND: The motivation for the BioHub project is to create an Integrated Knowledge Management System (IKMS) that will enable chemists to source ingredients from bio-renewables, rather than from non-sustainable sources such as fossil oil and its d...

DIY-Bio - economic, epistemological and ethical implications and ambivalences.

Life sciences, society and policy
Since 2008, we witness the emergence of the Do-It-Yourself Biology movement, a global movement spreading the use of biotechnology beyond traditional academic and industrial institutions and into the lay public. Practitioners include a broad mix of am...