title: FLAGdb++: A Bioinformatic Environment to Study and Compare Plant Genomes.
abstract: Today, the growing knowledge and data accumulation on plant genomes do not solve in a simple way the task of gene function inference. Because data of different types are coming from various sources, we need to integrate and analyze them to help biologists in this task. We created FLAGdb++( http://tools.ips2.u-psud.fr/FLAGdb ) to take up this challenge for a selection of plant genomes. In order to enrich gene function predictions, structural and functional annotations of the genomes are explored to generate meta-data and to compare them. Since data are numerous and complex, we focused on accessibility and visualization with an original and user-friendly interface. In this chapter we present the main tools of FLAGdb++and a use-case to explore a gene family: structural and functional properties of this family and research of orthologous genes in the other plant genomes.
authors.affiliation: Institute of Plant Sciences Paris-Saclay IPS2, CNRS, INRA, Univ Paris-Sud, Univ Evry, Univ Paris-Saclay, Bâtiment 630, 91405, Orsay, France.|Institute of Plant Sciences Paris-Saclay IPS2, Univ Paris-Diderot, Sorbonne Paris-Cité, Bâtiment 630, 91405, Orsay, France.
authors.forename: Jean Philippe
authors.initials: JP
authors.lastname: Tamby
authors.affiliation: Institute of Plant Sciences Paris-Saclay IPS2, CNRS, INRA, Univ Paris-Sud, Univ Evry, Univ Paris-Saclay, Bâtiment 630, 91405, Orsay, France. Veronique.Brunaud@u-psud.fr.|Institute of Plant Sciences Paris-Saclay IPS2, Univ Paris-Diderot, Sorbonne Paris-Cité, Bâtiment 630, 91405, Orsay, France. Veronique.Brunaud@u-psud.fr.
authors.forename: Véronique
authors.initials: V
authors.lastname: Brunaud
mesh_terms: D019295:Computational Biology / Q000379:methods*; D030561:Databases, Nucleic Acid; D018745:Genome, Plant; D023281:Genomics / Q000379:methods; D010944:Plants / Q000235:genetics*; D057386:Search Engine; D012984:Software; D014584:User-Computer Interface; D064878:Web Browser; D057188:Workflow
keywords: Chromosomes visualization; Comparing genome; Database; Gene function; Genome features; Interface; Plant genome