title: PGSB PlantsDB: updates to the database framework for comparative plant genome research.
abstract: PGSB (Plant Genome and Systems Biology: formerly MIPS) PlantsDB (http://pgsb.helmholtz-muenchen.de/plant/index.jsp) is a database framework for the comparative analysis and visualization of plant genome data. The resource has been updated with new data sets and types as well as specialized tools and interfaces to address user demands for intuitive access to complex plant genome data. In its latest incarnation, we have re-worked both the layout and navigation structure and implemented new keyword search options and a new BLAST sequence search functionality. Actively involved in corresponding sequencing consortia, PlantsDB has dedicated special efforts to the integration and visualization of complex triticeae genome data, especially for barley, wheat and rye. We enhanced CrowsNest, a tool to visualize syntenic relationships between genomes, with data from the wheat sub-genome progenitor Aegilops tauschii and added functionality to the PGSB RNASeqExpressionBrowser. GenomeZipper results were integrated for the genomes of barley, rye, wheat and perennial ryegrass and interactive access is granted through PlantsDB interfaces. Data exchange and cross-linking between PlantsDB and other plant genome databases is stimulated by the transPLANT project (http://transplantdb.eu/).
authors.affiliation: Plant Genome and Systems Biology, Helmholtz Center Munich - German Research Center for Environmental Health, 85764 Neuherberg, Germany manuel.spannagl@helmholtz-muenchen.de.
authors.forename: Manuel
authors.initials: M
authors.lastname: Spannagl
authors.affiliation: Plant Genome and Systems Biology, Helmholtz Center Munich - German Research Center for Environmental Health, 85764 Neuherberg, Germany Division of Computational Systems Biology, Department of Microbiology and Ecosystem Science, University of Vienna, 1090 Vienna, Austria.
authors.forename: Thomas
authors.initials: T
authors.lastname: Nussbaumer
authors.affiliation: Plant Genome and Systems Biology, Helmholtz Center Munich - German Research Center for Environmental Health, 85764 Neuherberg, Germany.
authors.forename: Kai C
authors.initials: KC
authors.lastname: Bader
authors.affiliation: Plant Genome and Systems Biology, Helmholtz Center Munich - German Research Center for Environmental Health, 85764 Neuherberg, Germany BILS (Bioinformatics Infrastructure for Life Sciences), Division of Cell Biology, Department of Clinical and Experimental Medicine, Linköping University, SE-558185 Linköping, Sweden.
authors.forename: Mihaela M
authors.initials: MM
authors.lastname: Martis
authors.affiliation: Plant Genome and Systems Biology, Helmholtz Center Munich - German Research Center for Environmental Health, 85764 Neuherberg, Germany.
authors.forename: Michael
authors.initials: M
authors.lastname: Seidel
authors.affiliation: Plant Genome and Systems Biology, Helmholtz Center Munich - German Research Center for Environmental Health, 85764 Neuherberg, Germany.
authors.forename: Karl G
authors.initials: KG
authors.lastname: Kugler
authors.affiliation: Plant Genome and Systems Biology, Helmholtz Center Munich - German Research Center for Environmental Health, 85764 Neuherberg, Germany.
authors.forename: Heidrun
authors.initials: H
authors.lastname: Gundlach
authors.affiliation: Plant Genome and Systems Biology, Helmholtz Center Munich - German Research Center for Environmental Health, 85764 Neuherberg, Germany.
authors.forename: Klaus F X
authors.initials: KF
authors.lastname: Mayer
mesh_terms: D030541:Databases, Genetic; D015870:Gene Expression; D018745:Genome, Plant; D023281:Genomics; D001467:Hordeum / Q000235:genetics; D010944:Plants / Q000235:genetics / Q000378:metabolism; D012434:Secale / Q000235:genetics; D012984:Software; D014908:Triticum / Q000235:genetics