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Thesis Methods: Assessing the Biological Plausibility of Regulatory Hypotheses
University of Skövde, School of Humanities and Informatics.
2005 (English)Report (Other academic)
Abstract [en]

Many algorithms that derive gene regulatory networks from microarray gene expression data have been proposed in the literature. The performance of such an algorithm is often measured by how well a genetic network can recreate the gene expression data that the network was derived from. However, this kind of performance does not necessarily mean that the regulatory hypotheses in the network are biologically plausible. We have therefore proposed a Gene Ontology based method for assessing the biological plausibility of regulatory hypotheses at the gene product level using prior biological knowledge in the form of Gene Ontology (GO) annotation of gene products and regulatory pathway databases (Gamalielsson et al. 2005). Templates were designed to encode general knowledge, derived by generalizing from known interactions to typical properties of interacting gene product pairs. By matching regulatory hypotheses to templates, the plausible hypotheses can be separated from inplausible ones. This document elaborates on how the present method can be improved and extended.

Place, publisher, year, edition, pages
Skövde: Institutionen för kommunikation och information , 2005. , 5 p.
Series
IKI Technical Reports, HS- IKI -TR-05-001
National Category
Information Science
Identifiers
URN: urn:nbn:se:his:diva-1262OAI: oai:DiVA.org:his-1262DiVA: diva2:2398
Available from: 2008-06-17 Created: 2008-06-17 Last updated: 2012-12-17Bibliographically approved

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fulltext(102 kB)108 downloads
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58743fd88c3da46bb7f05aa68772092e0d24a4ab3a9f6449edce16f22851538a56e6571f
Type fulltextMimetype application/pdf

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CiteExportLink to record
Permanent link

Direct link
Cite
Citation style
  • apa
  • harvard1
  • ieee
  • modern-language-association-8th-edition
  • vancouver
  • Other style
More styles
Language
  • de-DE
  • en-GB
  • en-US
  • fi-FI
  • nn-NO
  • nn-NB
  • sv-SE
  • Other locale
More languages
Output format
  • html
  • text
  • asciidoc
  • rtf