Computer applications

CMDI (Component Metadata Infrastructure)

The Component Metadata Infrastructure provides a framework to create and use self-defined metadata formats. It relies on a modular model of so-called metadata components, which can be assembled together, to improve reuse, interoperability and cooperation among metadata modelers. The model is standardised in ISO 24622-1 and ISO 24622-2. The serialization is typically in XML. Metadata in this format are often distributed via OAI-PMH. The definition of data categories is provided externally, for example by linking to schema.org or the Clarin Concept Registry.

MIBBI (Minimum Information for Biological and Biomedical Investigations)

A common portal to a group of nearly 40 checklists of Minimum Information for various biological disciplines. The MIBBI Foundry is developing a cross-analysis of these guidelines to create an intercompatible, extensible community of standards.

The concept was realized initially through the joint efforts of the Proteomics Standards Initiative, the Genomic Standards Consortium and the MGED RSBI Working Groups. The latest project to register with MIBBI is the MIABie guidelines for reporting biofilm research, as of January 2012.

PDBx/mmCIF (Protein Data Bank Exchange Dictionary and the Macromolecular Crystallographic Information Framework)

Protein Data Bank archive (PDB) is the single worldwide archival repository of information about the 3D structures of proteins, nucleic acids, and complex assemblies, managed by the Worldwide PDB (wwPDB). The PDB Exchange Dictionary (PDBx) is used by the wwPDB to define data content for deposition, annotation and archiving of PDB entries. PDBx incorporates the community standard metadata representation, the Macromolecular Crystallographic Information Framework (mmCIF), orginally developed under the auspices of the International Union of Crystallography (IUCr). PDBx has been extended by the wwPDB to include descriptions of other experimental methods that produce 3D macromolecular structure models such as Nuclear Magnetic Resonance Spectroscopy, 3D Electron Microscopy and Tomography.