Mainlab Chado Loader, Chado Data Display and Chado Search for Sequence, Map, Marker, QTL, Genotype, Phenotype and Germplasm Data

We report here the release of three Tripal extension modules, Chado Loader, Chado Data Display and Chado Search. These modules provide site developers with tools 1) to collect and upload data 2) to organize and display data and 3) to enable advanced search functions. Supported data types include organism, marker, QTL, Mendelian Trait Loci, germplasm, map, project, phenotype, genotype and their associated metadata. The Chado Loader module provides data collection templates and PHP loaders to enable site developers to collect and store various types of data that are required to build comprehensive genomic and genetic databases. The Chado Data Display module contains a set of Drupal/PHP templates which can be used as is or customized as desired. The Chado Search module provides comprehensive search and download functionality for sequence, gene, marker, map, QTL, phenotype, genotype and germplasm. Also included are the tools to build map data and species summary pages. The use of materialized views in the Chado Search module enables better performance as well as flexibility of data modeling in Chado, allowing existing Tripal databases with their data stored in different ways to utilize the module. These Tripal Extension modules are implemented in the Genome Database for Rosaceae (rosaceae.org), CottonGEN (cottongen.org) and Cool Season Food Legume Database (coolseasonfoodlegume.org).