Functional Genomics Experiment (FuGE)
Functional genomics experiments present many challenges in data archiving, sharing and querying. As the size and complexity of data generated from such experiments grows, so does the requirement for standard data formats. To address these needs, the Functional Genomics Experiment [Object Model / Markup-Language] (FuGE-OM, FuGE-ML) has been created to facilitate the development of data standards.
FuGE is a model of the shared components in different functional genomics domains. FuGE facilitates the development of data standards in functional genomics in two ways:
- FuGE provides a model of common components in functional genomics investigations, such as materials, data, protocols, equipment and software. These models can be extended to develop modular data formats with consistent structure.
- FuGE provides a framework for capturing complete laboratory workflows, enabling the integration of pre-existing data formats. In this context, FuGE allows the capture of additional metadata that gives formats a context within the complete workflow.
Please see FuGE home page for more information.
OBI
The Ontology for Biomedical Investigations (OBI) project is developing an integrated ontology for the description of biological and medical experiments and investigations. This includes a set of 'universal' terms, that are applicable across various biological and technological domains, and domain-specific terms relevant only to a given domain. This ontology will support the consistent annotation of biomedical investigations, regardless of the particular field of study. The ontology will model the design of an investigation, the protocols and instrumentation used, the material used, the data generated and the type analysis performed on it. This project was formerly called the Functional Genomics Investigation Ontology (FuGO) project.
- Develop an Ontology for Biomedical Investigations in collaboration with groups representing different biological and technological domains involved in Biomedical Investigations
- Make OBI compatible with other bio-ontologies
- Develop OBI using an open source approach
- Open source
- Create a valuable resource for the biomedical communities to provide a source of terms for consistent annotation of investigations
Please see OBI home page for more information.
ISAC
The International Society for Analytical Cytology (ISAC) is an international scientific and educational organization whose purpose is to promote: development of analytical cytology; transfer of methodologies; and exchange of scientific and technical information. Analytical cytology is broadly defined as the characterization and measurement of cells and cellular constituents for biological, diagnostic and therapeutic purposes.
Please see ISAC web site for more information.
Bioconductor
Bioconductor is an open source project to provide high quality software tools for analysing genomic data. The process is to develop statistical methodology in R and subsequently to distill the proven methods into interactive tools that can be accessed through a simpler user interface.
Please see Bioconductor web site for more information.