title: Rapid and selective surveillance of Arabidopsis thaliana genome annotations with Centrifuge.
abstract: Centrifuge is a user-friendly system to simultaneously access Arabidopsis gene annotations and intra- and inter-organism sequence comparison data. The tool allows rapid retrieval of user-selected data for each annotated Arabidopsis gene providing, in any combination, data on the following features: predicted protein properties such as mass, pI, cellular location and transmembrane domains; SWISS-PROT annotations; Interpro domains; Gene Ontology records; verified transcription; BLAST matches to the proteomes of A.thaliana, Oryza sativa (rice), Caenorhabditis elegans, Drosophila melanogaster and Homo sapiens. The tool lends itself particularly well to the rapid analysis of contigs or of tens or hundreds of genes identified by high-throughput gene expression experiments. In these cases, a summary table of principal predicted protein features for all genes is given followed by more detailed reports for each individual gene. Centrifuge can also be used for single gene analysis or in a word search mode.
  
  
  BACKGROUND
  http://centrifuge.unil.ch/
  
  
  BACKGROUND
  edward.farmer@unil.ch.
authors.affiliation: Gene Expression Laboratory, Plant Molecular Biology, University of Lausanne, Biology Building, 1015 Lausanne, Switzerland.
authors.forename: Florence
authors.initials: F
authors.lastname: Armand
authors.forename: Philipp
authors.initials: P
authors.lastname: Bucher
authors.forename: C Victor
authors.initials: CV
authors.lastname: Jongeneel
authors.forename: Edward E
authors.initials: EE
authors.lastname: Farmer
mesh_terms: D017360:Arabidopsis / Q000235:genetics* / Q000378:metabolism*; D029681:Arabidopsis Proteins / Q000235:genetics* / Q000378:metabolism*; D002874:Chromosome Mapping / Q000379:methods*; D003196:Computer Graphics; D020869:Gene Expression Profiling / Q000379:methods*; D012984:Software; D014584:User-Computer Interface
chemical_list: D029681:Arabidopsis Proteins