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Gene set function enrichment analysis using biological networks

Robert Cvitkovič (2017) Gene set function enrichment analysis using biological networks. EngD thesis.

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    Abstract

    Molecular biologists and geneticists are, nowadays, mostly focused on studying and understanding the DNA transcription. The gathered experimental data is difficult to interpret. Classical methods compare the discovered groups of genes with predefined gene sets. Unfortunately, these methods do not perform well. A solution is proposed by the SANTA method, which evaluates the experimental results on discovered gene sets based on known and extensive gene networks. In this thesis, we have implemented the method in Orange Bioinformatics. Orange is a well-known data-analysis programme. The Bioinformatics add-on includes specialised functionality for processing genomic data. Furthermore, we have also enriched its widgets for access to BioGRID and STRING, which store information on functional sets of genes and interactions.

    Item Type: Thesis (EngD thesis)
    Keywords: Python, Orange, bioinformatics, network, SANTA, STRING, BioGRID
    Number of Pages: 27
    Language of Content: Slovenian
    Mentor / Comentors:
    Name and SurnameIDFunction
    doc. dr. Tomaž Curk299Mentor
    Link to COBISS: http://www.cobiss.si/scripts/cobiss?command=search&base=50070&select=(ID=)
    Institution: University of Ljubljana
    Department: Faculty of Computer and Information Science
    Item ID: 3915
    Date Deposited: 11 Sep 2017 10:15
    Last Modified: 14 Sep 2017 00:07
    URI: http://eprints.fri.uni-lj.si/id/eprint/3915

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