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Series GSE9869 Query DataSets for GSE9869
Status Public on Jul 22, 2008
Title Gene expression changes associated with the anti-angiogenic effect of KLK3 (PSA) on HUVECs
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Kallikrein-related peptidase 3 (KLK3, also known as prostate-specific antigen, PSA) is a chymotrypsin-like kallikrein that has been shown to have anti-angiogenic properties. KLK3 expression in prostate cancer is associated with low microvessel density. We have previously shown in a human umbilical vein endothelial cell (HUVEC) model that the anti-angiogenic effect of KLK3 is related to its enzymatic activity. However, the mechanism of this effect remains to be clarified. To this end we have used a DNA microarray to study the KLK3-induced changes in gene expression associated with reduction of HUVEC tube formation. Among the 41000 genes studied, 311 were differentially expressed in control and KLK3-treated cells. These changes were enriched in several pathways, including the pathways associated with proteasome, ubiquitin-mediated proteolysis, focal adhesion and regulation of actin cytoskeleton. Furthermore, the changes were opposite to those described previously to occur during tubulogenesis. In conclusion, our results show that KLK3 induces gene expression changes in HUVECs. While these changes might be relevant for the mechanism by which KLK3 exerts its anti-angiogenic activity, it cannot be judged by the present results whether the changes are secondary to morphogenic differentiation of the cells or the primary mechanism mediating the effect of KLK3.
Keywords: KLK3 treatment, tube formation
Overall design Human umbilical vein endothelial cells (HUVECs) were isolated from umbilical cord veins and grown in Endothelial Cell Basal Medium supplemented with an Endothelial Cell Growth Medium Supplement Pack (PromoCell). The cells were cultured on Matrigel basement membrane prepara-tion together with 500 nM enzymatically active KLK3 (PSA). Phosphate buffered saline (PBS) was used for control. HUVECs were grown on Matrigel for 18 h.

RNA was isolated from KLK3-treated and control HUVECs from three different individuals. Cell Recovery Solution (BD Biosciences) was used to detach cells from the Matrigel. Total RNA was isolated with the RNeasy Mini Kit (Qiagen) according to manufacturer’s instructions. RNA con-centration and quality of the samples was determined with an Agilent 2100 bioanalyser (Agilent Technologies) by measuring the RNA integrity number (RIN). All samples contained high quality RNA (RIN 9.5-10).

DNA microarray analysis was performed with the Agilent Whole Human Genome Oligo Microar-ray 4x44K (G4112F) (Agilent Technologies Inc.) following the manufacturer’s protocol. Total RNA (1 ug) was labeled using the RNA input fluorescent linear amplification kit according to the manufacturer's recommendations (Agilent Technologies Inc.). RNA was hybridized on Agilent's Human 4x44K Oligo Microarrays containing 44000 features (41000 unique genes and transcripts). Pre-processing of the data was performed by Feature Extraction software (v 7.5.1).
Contributor(s) Aaltonen JM, Laakkonen P, Kilpinen S, Stenman U, Koistinen H
Citation(s) 18627292
Submission date Dec 13, 2007
Last update date Feb 22, 2018
Contact name Hannu Koistinen
Organization name University of Helsinki
Department Clinical Chemistry
Street address PO Box 63
City Helsinki
ZIP/Postal code 00014
Country Finland
Platforms (1)
GPL4133 Agilent-014850 Whole Human Genome Microarray 4x44K G4112F (Feature Number version)
Samples (3)
GSM249317 Gene expression changes associated with the anti-angiogenic effect of KLK3 in HUVECs
GSM249318 Gene expression changes associated with the anti-angiogenic effect of KLK3 (PSA) on HUVECs replicate 2
GSM249336 Gene expression changes associated with the anti-angiogenic effect of KLK3 (PSA) on HUVECs replicate 3
BioProject PRJNA103857

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Supplementary file Size Download File type/resource
GSE9869_RAW.tar 6.9 Mb (http)(custom) TAR
Processed data included within Sample table

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