title: ResA3: a web tool for resampling analysis of arbitrary annotations.
abstract: Resampling algorithms provide an empirical, non-parametric approach to determine the statistical significance of annotations in different experimental settings. ResA(3) (Resampling Analysis of Arbitrary Annotations, short: ResA) is a novel tool to facilitate the analysis of enrichment and regulation of annotations deposited in various online resources such as KEGG, Gene Ontology and Pfam or any kind of classification. Results are presented in readily accessible navigable table views together with relevant information for statistical inference. The tool is able to analyze multiple types of annotations in a single run and includes a Gene Ontology annotation feature. We successfully tested ResA using a dataset obtained by measuring incorporation rates of stable isotopes into proteins in intact animals. ResA complements existing tools and will help to evaluate the increasing number of large-scale transcriptomics and proteomics datasets (resa.mpi-bn.mpg.de).
authors: Biomolecular Mass Spectrometry and Cardiac Development and Remodeling, Max Planck Institute for Heart and Lung Research, Bad Nauheim, Germany. Aaron.Ruhs@mpi-bn.mpg.de
authors: Aaron
authors: A
authors: Ruhs
authors: Franz
authors: F
authors: Cemic
authors: Thomas
authors: T
authors: Braun
authors: Marcus
authors: M
authors: Krüger
mesh_terms: D000465:Algorithms; D030562:Databases, Protein; D020869:Gene Expression Profiling; D020407:Internet; D012494:Sampling Studies; D012984:Software
references: Cell. 2008 Jul 25;134(2):353-64
references: 18662549
references: J Proteome Res. 2011 Dec 2;10(12):5275-84
references: 22050367
references: BMC Bioinformatics. 2009 Feb 03;10:48
references: 19192299
references: Nucleic Acids Res. 2004 Jan 1;32(Database issue):D262-6
references: 14681408
references: Genome Biol. 2003;4(4):R28
references: 12702209
references: BMC Bioinformatics. 2005 Nov 09;6:269
references: 16280084
references: Nat Biotechnol. 2009 Dec;27(12):1135-7
references: 20010596
references: Proc Natl Acad Sci U S A. 2010 Aug 10;107(32):14508-13
references: 20699386
references: BMC Bioinformatics. 2004 Dec 09;5:193
references: 15588298