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:

Language of Content:

Slovenian

Mentor / Comentors:

Name and Surname	ID	Function
doc. dr. Tomaž Curk	299	Mentor

Link to COBISS:

http://www.cobiss.si/scripts/cobiss?command=search&base=51012&select=(ID=1537536963)

Institution:

University of Ljubljana

Department:

Faculty of Computer and Information Science

Item ID:

3915

Date Deposited:

11 Sep 2017 10:15

Last Modified:

25 Sep 2017 10:30

URI:

http://eprints.fri.uni-lj.si/id/eprint/3915

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