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Using semantic similarity measures across Gene Ontology to predict protein-protein interactions
University of Skövde, School of Humanities and Informatics.
2005 (English)Independent thesis Basic level (degree of Bachelor)Student thesis
Abstract [en]

Living cells are controlled by proteins and genes that interact through complex molecular pathways to achieve a specific function. Therefore, determination of protein-protein interaction is fundamental for the understanding of the cell’s lifecycle and functions. The function of a protein is also largely determined by its interactions with other proteins. The amount of protein-protein interaction data available has multiplied by the emergence of large-scale technologies for detecting them, but the drawback of such measures is the relatively high amount of noise present in the data. It is time consuming to experimentally determine protein-protein interactions and therefore the aim of this project is to create a computational method that predicts interactions with high sensitivity and specificity. Semantic similarity measures were applied across the Gene Ontology terms assigned to proteins in S. cerevisiae to predict protein-protein interactions. Three semantic similarity measures were tested to see which one performs best in predicting such interactions. Based on the results, a method that predicts function of proteins in connection with connectivity was devised. The results show that semantic similarity is a useful measure for predicting protein-protein interactions.

Place, publisher, year, edition, pages
Skövde: Institutionen för kommunikation och information , 2005. , 60 p.
Keyword [en]
Semantic Similarity, Gene Ontology, Protein-protein interactions, Protein function
National Category
Bioinformatics and Systems Biology
Identifiers
URN: urn:nbn:se:his:diva-971OAI: oai:DiVA.org:his-971DiVA: diva2:3397
Presentation
(English)
Uppsok
Life Earth Science
Supervisors
Available from: 2008-03-19 Created: 2008-03-19 Last updated: 2009-10-05

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CiteExportLink to record
Permanent link

Direct link
Cite
Citation style
  • apa
  • 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