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The FAIR Guiding Principles for scientific data management and stewardship
TLDR
This Comment is the first formal publication of the FAIR Principles, and includes the rationale behind them, and some exemplar implementations in the community. Expand
The Biomolecular Interaction Network Database and related tools 2005 update
TLDR
The Biomolecular Interaction Network Database (BIND) archives biomolecular interaction, reaction, complex and pathway information and provides users with methods to discover interactions and molecular mechanisms. Expand
The Ontology for Biomedical Investigations
TLDR
The state of OBI and several applications that are using it are described, such as adding semantic expressivity to existing databases, building data entry forms, and enabling interoperability between knowledge resources. Expand
Controlled vocabularies and semantics in systems biology
TLDR
Three ontologies created specifically to address the needs of the systems biology community are described, including the Systems Biology Ontology, which provides semantic information about the model components, and the Kinetic Simulation Algorithm Ontology and the Terminology for the Description of Dynamics, which categorizes dynamical features of the simulation results and general systems behavior. Expand
Global investigation of protein–protein interactions in yeast Saccharomyces cerevisiae using re-occurring short polypeptide sequences
TLDR
This work reports the first all-to-all sequence-based computational screen of PPIs in yeast, Saccharomyces cerevisiae in which it identifies 29 589 high confidence interactions of ∼2 × 107 possible pairs, of which 14 438 PPIs have not been previously reported and may represent novel interactions. Expand
The Semanticscience Integrated Ontology (SIO) for biomedical research and knowledge discovery
TLDR
The Semanticscience Integrated Ontology is an ontology to facilitate biomedical knowledge discovery that provides an ontological foundation for the Bio2RDF linked data for the life sciences project and is used for semantic integration and discovery for SADI-based semantic web services. Expand
Bio2RDF Release 2: Improved Coverage, Interoperability and Provenance of Life Science Linked Data
TLDR
A significant update to increase the overall quality of RDFized datasets generated from open scripts powered by an API to generate registry-validated IRIs, dataset provenance and metrics, SPARQL endpoints, downloadable RDF and database files is described. Expand
Toward a complete dataset of drug-drug interaction information from publicly available sources
TLDR
It is thought that systems that provide access to the comprehensive lists, such as APIs into RxNorm, should be careful to inform users that the lists may be incomplete with respect to PDDIs that drug experts suggest clinicians be aware of. Expand
Cloudy, increasingly FAIR; revisiting the FAIR Data guiding principles for the European Open Science Cloud
TLDR
The FAIR Data Principles are revisited, to clarify both what FAIRness is, and is not. Expand
Analysis of In Vitro Aptamer Selection Parameters
TLDR
It is highlighted that the choice of target and selection template made the largest and most significant impact on the success of a de novo aptamer selection and the need for improved documentation and more thorough experimentation of SELEX criteria to determine their correlation withSELEX success. Expand
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