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Ranking the relevance of genes targeted by cancer-associated MiRNAs
University of Skövde, School of Life Sciences. (Bioinformatik)
2008 (English)Independent thesis Advanced level (degree of Master (One Year)), 10 credits / 15 HE creditsStudent thesis
Abstract [en]

MicroRNAs control the expression of their target genes by translational repression.

They are involved in various biological processes including cancer progression.

To uncover the biological role of microRNAs it is necessary to identify their

target genes. The small number of experimentally validated target genes makes

computer prediction methods very important. However, state of the art prediction

tools result in a great number of putative targets. The number of false positives

among those putative targets is unknown. This report proposes, investigates and

analyses two ways of ranking the biological relevance of putative targets of miRNAs

which are associated with breast cancer.

One approach characterises values of network properties of the putative microRNA

targets in the human Protein-Protein Interaction network and compares

them to network property values of validated microRNA targets. Using these results

we suggest a simple approach for ranking the relevance of putative targets.

The approach consists of testing if a network property value of a putative target

differs from the mean value of the network. In addition we study which network

property contributes most to ranking using this approach.

The second approach identifies commonly overrepresented Gene Ontology categories

among putative microRNA targets, validated targets and known breast

cancer genes. We investigate possibilities to use the occurrence of a putative target

in these categories to rank its biological relevance.

Finally we present a number of genes with interesting features considering both

approaches. These genes might play a role in breast cancer progression and might

be worth investigating further.

Place, publisher, year, edition, pages
2008. , 54 p.
Identifiers
URN: urn:nbn:se:his:diva-3576OAI: oai:DiVA.org:his-3576DiVA: diva2:288186
Presentation
(English)
Uppsok
Life Earth Science
Supervisors
Examiners
Available from: 2010-01-21 Created: 2010-01-20 Last updated: 2010-01-21Bibliographically approved

Open Access in DiVA

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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
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