A classification of tasks in bioinformatics

Abstract Motivation: This paper reports on a survey of bioinformatics tasks currently undertaken by working biologists. The aim was to find the range of tasks that need to be supported and the components needed to do this in a general query system. This enabled a set of evaluation criteria to be used to assess both the biology and mechanical nature of general query systems. Results: A classification of the biological content of the tasks gathered offers a checklist for those tasks (and their specialisations) that should be offered in a general bioinformatics query system. This semantic analysis was contrasted with a syntactic analysis that revealed the small number of components required to describe all bioinformatics questions. Both the range of biological tasks and syntactic task components can be seen to provide a set of bioinformatics requirements for general query systems. These requirements were used to evaluate two bioinformatics query systems. Contact: robert.stevens@cs.man.ac.uk Supplementary information: The questionnaire, responses and their summaries may be found at http://img.cs.man.ac.uk/tambis/questionnaire/bio-queries.html * To whom correspondence should be addressed.