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Published on: December 22, 2017
BASC: an integrated bioinformatics system for Brassica research
Timothy A Erwin1, Erica G Jewell, Christopher G Love
1Plant Biotechnology Centre, Victorian AgriBiosciences Centre, 1 Park Drive, Bundoora, Victoria 3083, Australia.
Nucleic Acids Research
|December 7, 2006
Summary
The Brassica Analysis System (BASC) integrates genetic, genomic, and phenotypic data for Brassica species. This public resource aids the Multinational Brassica Genome Sequencing Project with diverse data-mining tools.
Area of Science:
- Plant genomics
- Bioinformatics
- Molecular biology
Background:
- The Multinational Brassica Genome Sequencing Project requires integrated data resources.
- Existing data repositories may lack comprehensive integration of genetic, genomic, and phenotypic information for Brassica species.
Purpose of the Study:
- To present the Brassica Analysis System (BASC), a public resource for integrated data mining and browsing.
- To support the Multinational Brassica Genome Sequencing Project by providing access to diverse Brassica-related data.
Main Methods:
- Development of five distinct modules: ESTDB, Microarray, MarkerQTL, CMap, and EnsEMBL.
- ESTDB integrates expressed gene sequences with annotations from GenBank, UniRef, and Arabidopsis genome data.
- MarkerQTL integrates genetic markers, maps, individuals, genotypes, and traits; EnsEMBL and CMap provide genome and comparative map viewers.
Main Results:
- The BASC system offers integrated access to genetic, genomic, and phenotypic data for Brassica species.
- ESTDB provides annotated expressed gene sequences.
- MarkerQTL offers complex integration of genetic and trait data, complemented by genome and comparative map viewers.
Conclusions:
- BASC serves as a valuable public resource for Brassica research and the Multinational Brassica Genome Sequencing Project.
- The integrated nature of BASC facilitates comprehensive data mining and browsing for genetic and genomic studies.
- The system enhances the visualization and integration of genetic and genomic data through its specialized modules.
