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Plant Genomics Databases

Volume 1533 of the series Methods in Molecular Biology pp 183-200

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A Guide to the PLAZA 3.0 Plant Comparative Genomic Database

  • Klaas VandepoeleAffiliated withDepartment of Plant Systems Biology, VIBDepartment of Plant Biotechnology and Bioinformatics, Ghent UniversityBioinformatics Institute Ghent, Ghent University Email author 

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Abstract

PLAZA 3.0 is an online resource for comparative genomics and offers a versatile platform to study gene functions and gene families or to analyze genome organization and evolution in the green plant lineage. Starting from genome sequence information for over 35 plant species, precomputed comparative genomic data sets cover homologous gene families, multiple sequence alignments, phylogenetic trees, and genomic colinearity information within and between species. Complementary functional data sets, a Workbench, and interactive visualization tools are available through a user-friendly web interface, making PLAZA an excellent starting point to translate sequence or omics data sets into biological knowledge. PLAZA is available at http://​bioinformatics.​psb.​ugent.​be/​plaza/​.

Key words

Gene family Orthology Gene functions Comparative genomics Plants