Limits...
Secondary Data Analytics of Aquaporin Expression Levels in Glioblastoma Stem-Like Cells.

Isokpehi RD, Wollenberg Valero KC, Graham BE, Pacurari M, Sims JN, Udensi UK, Ndebele K - Cancer Inform (2015)

Bottom Line: However, the expression levels of AQP1 and AQP4 have not been previously described in a panel of 92 glioma samples.Our investigation also included a total of 2,566 expression levels from 28 Affymetrix microarray probe sets encoding 13 human aquaporins (AQP0-AQP12); CXCR4 (the receptor for stromal cell derived factor-1 [SDF-1], a potential glioma stem cell therapeutic target]); and PROM1 (gene encoding CD133, the widely used glioma stem cell marker).Interactive visual representation designs for integrating phenotypic features and expression levels revealed that inverse expression levels of AQP1 and AQP4 correlate with distinct phenotypes in a set of cell lines grouped into full and restricted stem-like phenotypes.

View Article: PubMed Central - PubMed

Affiliation: College of Science, Engineering, and Mathematics, Bethune-Cookman University, Daytona Beach, FL, USA.

ABSTRACT
Glioblastoma is the most common brain tumor in adults in which recurrence has been attributed to the presence of cancer stem cells in a hypoxic microenvironment. On the basis of tumor formation in vivo and growth type in vitro, two published microarray gene expression profiling studies grouped nine glioblastoma stem-like (GS) cell lines into one of two groups: full (GSf) or restricted (GSr) stem-like phenotypes. Aquaporin-1 (AQP1) and aquaporin-4 (AQP4) are water transport proteins that are highly expressed in primary glial-derived tumors. However, the expression levels of AQP1 and AQP4 have not been previously described in a panel of 92 glioma samples. Therefore, we designed secondary data analytics methods to determine the expression levels of AQP1 and AQP4 in GS cell lines and glioblastoma neurospheres. Our investigation also included a total of 2,566 expression levels from 28 Affymetrix microarray probe sets encoding 13 human aquaporins (AQP0-AQP12); CXCR4 (the receptor for stromal cell derived factor-1 [SDF-1], a potential glioma stem cell therapeutic target]); and PROM1 (gene encoding CD133, the widely used glioma stem cell marker). Interactive visual representation designs for integrating phenotypic features and expression levels revealed that inverse expression levels of AQP1 and AQP4 correlate with distinct phenotypes in a set of cell lines grouped into full and restricted stem-like phenotypes. Discriminant function analysis further revealed that AQP1 and AQP4 expression are better predictors for tumor formation and growth types in glioblastoma stem-like cells than are CXCR4 and PROM1. Future investigations are needed to characterize the molecular mechanisms for inverse expression levels of AQP1 and AQP4 in the glioblastoma stem-like neurospheres.

No MeSH data available.


Related in: MedlinePlus

Box plot of expression levels for AQP1, AQP4, CXCR4, and PROM1 in two glioblastoma stem-like clonal sublines (GS-3 and GS-7) and their associated passaged parental lines and neurospheres. Interactive version of figure is available at https://public.tableausoftware.com/views/glioma_aqp/figure2.
© Copyright Policy - open-access
Related In: Results  -  Collection


getmorefigures.php?uid=PMC4524166&req=5

f2-cin-14-2015-095: Box plot of expression levels for AQP1, AQP4, CXCR4, and PROM1 in two glioblastoma stem-like clonal sublines (GS-3 and GS-7) and their associated passaged parental lines and neurospheres. Interactive version of figure is available at https://public.tableausoftware.com/views/glioma_aqp/figure2.

Mentions: A new dataset on the expression levels of probe sets of the aquaporin genes CXCR4 and PROM1 (CD133) was constructed from raw data downloaded for each gene in the BIOGPS dataset 1692 (http://biogps.org/dataset/1692/). The constructed dataset, available as a tab in the supplementary spreadsheet file, consisted of a total of 2,566 expression values for 28 Affymetrix probe sets encoding 13 human aquaporins (AQP0–AQP12), CXCR4, and PROM1. In Figure 1, a visual representation is shown of the expression values of all the probe sets in glioblastoma stem-like cells (GS-1 to GS-12) grouped by phenotype (full or restricted). A box plot was constructed from the expression levels of the 15 genes in the GS-3 and GS-7 lineages (Fig. 2). The highest levels of expression were found in the probe sets of AQP1, AQP4, and CXCR4. The plot was annotated for potentially interesting expression levels that were outliers or at the extreme levels of the box. Inverse expression levels of AQP1 and AQP4 were observed between the full (GS-3) and restricted (GS-7) GS cells.


Secondary Data Analytics of Aquaporin Expression Levels in Glioblastoma Stem-Like Cells.

Isokpehi RD, Wollenberg Valero KC, Graham BE, Pacurari M, Sims JN, Udensi UK, Ndebele K - Cancer Inform (2015)

Box plot of expression levels for AQP1, AQP4, CXCR4, and PROM1 in two glioblastoma stem-like clonal sublines (GS-3 and GS-7) and their associated passaged parental lines and neurospheres. Interactive version of figure is available at https://public.tableausoftware.com/views/glioma_aqp/figure2.
© Copyright Policy - open-access
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC4524166&req=5

f2-cin-14-2015-095: Box plot of expression levels for AQP1, AQP4, CXCR4, and PROM1 in two glioblastoma stem-like clonal sublines (GS-3 and GS-7) and their associated passaged parental lines and neurospheres. Interactive version of figure is available at https://public.tableausoftware.com/views/glioma_aqp/figure2.
Mentions: A new dataset on the expression levels of probe sets of the aquaporin genes CXCR4 and PROM1 (CD133) was constructed from raw data downloaded for each gene in the BIOGPS dataset 1692 (http://biogps.org/dataset/1692/). The constructed dataset, available as a tab in the supplementary spreadsheet file, consisted of a total of 2,566 expression values for 28 Affymetrix probe sets encoding 13 human aquaporins (AQP0–AQP12), CXCR4, and PROM1. In Figure 1, a visual representation is shown of the expression values of all the probe sets in glioblastoma stem-like cells (GS-1 to GS-12) grouped by phenotype (full or restricted). A box plot was constructed from the expression levels of the 15 genes in the GS-3 and GS-7 lineages (Fig. 2). The highest levels of expression were found in the probe sets of AQP1, AQP4, and CXCR4. The plot was annotated for potentially interesting expression levels that were outliers or at the extreme levels of the box. Inverse expression levels of AQP1 and AQP4 were observed between the full (GS-3) and restricted (GS-7) GS cells.

Bottom Line: However, the expression levels of AQP1 and AQP4 have not been previously described in a panel of 92 glioma samples.Our investigation also included a total of 2,566 expression levels from 28 Affymetrix microarray probe sets encoding 13 human aquaporins (AQP0-AQP12); CXCR4 (the receptor for stromal cell derived factor-1 [SDF-1], a potential glioma stem cell therapeutic target]); and PROM1 (gene encoding CD133, the widely used glioma stem cell marker).Interactive visual representation designs for integrating phenotypic features and expression levels revealed that inverse expression levels of AQP1 and AQP4 correlate with distinct phenotypes in a set of cell lines grouped into full and restricted stem-like phenotypes.

View Article: PubMed Central - PubMed

Affiliation: College of Science, Engineering, and Mathematics, Bethune-Cookman University, Daytona Beach, FL, USA.

ABSTRACT
Glioblastoma is the most common brain tumor in adults in which recurrence has been attributed to the presence of cancer stem cells in a hypoxic microenvironment. On the basis of tumor formation in vivo and growth type in vitro, two published microarray gene expression profiling studies grouped nine glioblastoma stem-like (GS) cell lines into one of two groups: full (GSf) or restricted (GSr) stem-like phenotypes. Aquaporin-1 (AQP1) and aquaporin-4 (AQP4) are water transport proteins that are highly expressed in primary glial-derived tumors. However, the expression levels of AQP1 and AQP4 have not been previously described in a panel of 92 glioma samples. Therefore, we designed secondary data analytics methods to determine the expression levels of AQP1 and AQP4 in GS cell lines and glioblastoma neurospheres. Our investigation also included a total of 2,566 expression levels from 28 Affymetrix microarray probe sets encoding 13 human aquaporins (AQP0-AQP12); CXCR4 (the receptor for stromal cell derived factor-1 [SDF-1], a potential glioma stem cell therapeutic target]); and PROM1 (gene encoding CD133, the widely used glioma stem cell marker). Interactive visual representation designs for integrating phenotypic features and expression levels revealed that inverse expression levels of AQP1 and AQP4 correlate with distinct phenotypes in a set of cell lines grouped into full and restricted stem-like phenotypes. Discriminant function analysis further revealed that AQP1 and AQP4 expression are better predictors for tumor formation and growth types in glioblastoma stem-like cells than are CXCR4 and PROM1. Future investigations are needed to characterize the molecular mechanisms for inverse expression levels of AQP1 and AQP4 in the glioblastoma stem-like neurospheres.

No MeSH data available.


Related in: MedlinePlus