Generic Model Organism Database

Generic Model Organism Database

Generic Model Organism Database

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Description:
The Generic Model Organism Database (GMOD) Project began as an effort to create reusable software tools for developing Model Organism Databases (MODs). MODs describe genome and other information about important experimental organism in the life sciences. Also called organism-specific databases, these databases capture the large volumes of data and information being generated by modern biology.

Behind every MOD is a software system that is designed to help manage the data within the MOD, and to help users query and access those data. In the past, every MOD project developed its own software tools. GMOD is a loose federation of software applications (components) aimed at providing functionality that is needed by many or all MODs. Some of these software components are linked together by their use of a common database schema known as Chado. This project is funded by the United States National Institutes of Health, National Science Foundation and the USDA Agricultural Research Service.

Chado database schema

Chado makes extensive use of controlled vocabularies to type all entities in the database, so there is a feature table where gene, transcripts, exons, transposable elements, etc. are stored and their type is provided by the . When a new datatype comes along, the feature table requires no modification, only an update of the data in the database. The same is largely true of analysis data that can be stored in Chado as well.

The existing core modules of Chado are:
  • sequence......
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