title: USAGE: a web-based approach towards the analysis of SAGE data. Serial Analysis of Gene Expression.
abstract: BACKGROUND
  SAGE enables the determination of genome-wide mRNA expression profiles. A comprehensive analysis of SAGE data requires software, which integrates (statistical) data analysis methods with a database system. Furthermore, to facilitate data sharing between users, the application should reside on a central server and be accessed via the internet. Since such an application was not available we developed the USAGE package.
  
  
  RESULTS
  USAGE is a web-based application that comprises an integrated set of tools, which offers many functions for analysing and comparing SAGE data. Additionally, USAGE includes a statistical method for the planning of new SAGE experiments. USAGE is available in a multi-user environment giving users the option of sharing data. USAGE is interfaced to a relational database to store data and analysis results. The USAGE query editor allows the composition of queries for searching this database. Several database functions have been included which enable the selection and combination of data. USAGE provides the biologist increased functionality and flexibility for analysing SAGE data.
  
  
  BACKGROUND
  USAGE is freely accessible for academic institutions at http://www.cmbi.kun.nl/usage/. The source code of USAGE is freely available for academic institutions on request from the first author.
authors: Bioinformatics Laboratory, Academic Medical Center, Meibergdreef 9, 1000 AZ Amsterdam, The Netherlands. a.h.vancampen@amc.uva.nl
authors: A H
authors: AH
authors: van Kampen
authors: B D
authors: BD
authors: van Schaik
authors: E
authors: E
authors: Pauws
authors: E M
authors: EM
authors: Michiels
authors: J M
authors: JM
authors: Ruijter
authors: H N
authors: HN
authors: Caron
authors: R
authors: R
authors: Versteeg
authors: S H
authors: SH
authors: Heisterkamp
authors: J A
authors: JA
authors: Leunissen
authors: F
authors: F
authors: Baas
authors: M
authors: M
authors: van der Mee
mesh_terms: D016208:Databases, Factual; D020224:Expressed Sequence Tags; D020869:Gene Expression Profiling / Q000379:methods*; D006801:Humans; D016247:Information Storage and Retrieval; D020407:Internet; D012333:RNA, Messenger / Q000235:genetics; D012984:Software
chemical_list: D012333:RNA, Messenger