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Deriving a refined set of housekeeping genes in differentiating human embryonic stem cells
University of Skövde, School of Humanities and Informatics.
2008 (English)Independent thesis Advanced level (degree of Master (One Year)), 20 credits / 30 HE creditsStudent thesis
Abstract [en]

In this thesis project housekeeping genes in differentiating human embryonic stem cells were investigated. Housekeeping genes are involved in basic functions in the cells and are assumed to be expressed at relatively constant levels across different cell types and experimental conditions. Based on these features, housekeeping genes are frequently used as controls in calibration of gene expression data. Commonly used housekeeping genes in somatic tissues have shown to vary notably in human embryonic stem cells and are therefore inappropriate as reference genes in this unique cell type. In the present work a novel set of gene expression data obtained by profiling of undifferentiated and early differentiating cardiac cells, was analyzed. Stably expressed genes were identified in this data set and were subsequently intersected with a previously proposed set of 292 stable genes in human embryonic stem cells. A resulting set of 73 genes show stability across all investigated cell lines and experimental conditions. These genes are suggested as a more reliable set of reference genes in differentiating human embryonic stem cells than frequently used housekeeping genes in somatic tissue. In addition, a novel set of 20 genes was identified as very stably expressed during the differentiation towards the cardiac lineage. After further validation of stability with RT-PCR, these genes could be useful as controls in studies of human embryonic stem cells that differentiate towards the cardiac lineage.

Place, publisher, year, edition, pages
Skövde: Institutionen för kommunikation och information , 2008. , 39 p.
Keyword [en]
housekeeping gene, stem cells, microarray
National Category
Bioinformatics and Systems Biology
Identifiers
URN: urn:nbn:se:his:diva-1053OAI: oai:DiVA.org:his-1053DiVA: diva2:2169
Presentation
(English)
Uppsok
Life Earth Science
Supervisors
Examiners
Available from: 2008-04-08 Created: 2008-04-08 Last updated: 2009-12-11

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Bioinformatics and Systems Biology

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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