Genome-Wide Oligonucleotide Microarray Analysis of Gene-Expression Profiles of Taiwanese Patients with Anaplastic Astrocytoma and Glioblastoma Multiforme

Chang, Chia-Ying

doi:10.1177/1087057108323908

Cited by 4 publications

(2 citation statements)

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“…They identified 44 genes whose expression patterns were used to classify gliomas into previously unrecognized biological and prognostic groups. Chang et al investigated gene expression profiles of Taiwanese patients with anaplastic astrocytoma and identified nearly 52 differentially expressed genes compared to normal brain . In another interesting study, Van et al analyzed the transcriptional profile of approximately 6800 genes in primary grade II gliomas and corresponding recurrent high-grade gliomas (grade III or IV) from eight patients using oligonucleotide-based microarray analysis .…”

Section: Introductionmentioning

confidence: 99%

“…Chang et al investigated gene expression profiles of Taiwanese patients with anaplastic astrocytoma and identified nearly 52 differentially expressed genes compared to normal brain. 2 In another interesting study, Van et al analyzed the transcriptional profile of approximately 6800 genes in primary grade II gliomas and corresponding recurrent high-grade gliomas (grade III or IV) from eight patients using oligonucleotide-based microarray analysis. 3 A total of 66 differentially expressed genes were identified between the primary and recurrent tumors.…”

Section: ■ Introductionmentioning

confidence: 99%

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Heterogeneous Nuclear Ribonucleoproteins and Their Interactors Are a Major Class of Deregulated Proteins in Anaplastic Astrocytoma: A Grade III Malignant Glioma

et al. 2013

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Anaplastic astrocytoma is a high grade malignant glioma (WHO grade III) of the central nervous system which arises from a low grade II tumor and invariably progresses into lethal glioblastoma (WHO grade IV). We have studied differentially expressed proteins from the microsomal fraction of the clinical specimens of these tumors, using iTRAQ and high-resolution mass spectrometry followed by immunohistochemistry for representative proteins on tissue sections. A total of 2642 proteins were identified, 266 of them with minimum 2 peptide signatures and 2-fold change in expression. The major groups of proteins revealed to be differentially expressed were associated with key cellular processes such as post transcriptional processing, protein translation, and acute phase response signaling. A distinct inclusion among these important proteins is 10 heterogeneous nuclear ribonucleoproteins (hnRNPs) and their interacting partners which have regulatory functions in the cell. hnRNP-mediated post transcriptional events are known to play a major role in mRNA processing, stability, and distribution. Their altered levels have also been observed by us in lower (diffused astrocytoma) and higher (glioblastoma) grades of gliomas, and membrane localization of hnRNPs has also been documented in the literature. hnRNPs may thus be major factors underlying global gene expression changes observed in glial tumors while their differential presence in the microsomal fraction suggests yet additional and unknown roles in tumorigenesis.

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Section: Introductionmentioning

confidence: 99%

Section: ■ Introductionmentioning

confidence: 99%

Heterogeneous Nuclear Ribonucleoproteins and Their Interactors Are a Major Class of Deregulated Proteins in Anaplastic Astrocytoma: A Grade III Malignant Glioma

et al. 2013

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Investigating survival prognosis of glioblastoma using evolutional properties of gene networks

Upton

Arvanitis

2012

2012 IEEE 12th International Conference on Bioinformatics &Amp; Bioengineering (BIBE)

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A composite network of conserved and tissue specific gene interactions reveals possible genetic interactions in glioma

2017

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Differential co-expression network analyses have recently become an important step in the investigation of cellular differentiation and dysfunctional gene-regulation in cell and tissue disease-states. The resulting networks have been analyzed to identify and understand pathways associated with disorders, or to infer molecular interactions. However, existing methods for differential co-expression network analysis are unable to distinguish between various forms of differential co-expression. To close this gap, here we define the three different kinds (conserved, specific, and differentiated) of differential co-expression and present a systematic framework, CSD, for differential co-expression network analysis that incorporates these interactions on an equal footing. In addition, our method includes a subsampling strategy to estimate the variance of co-expressions. Our framework is applicable to a wide variety of cases, such as the study of differential co-expression networks between healthy and disease states, before and after treatments, or between species. Applying the CSD approach to a published gene-expression data set of cerebral cortex and basal ganglia samples from healthy individuals, we find that the resulting CSD network is enriched in genes associated with cognitive function, signaling pathways involving compounds with well-known roles in the central nervous system, as well as certain neurological diseases. From the CSD analysis, we identify a set of prominent hubs of differential co-expression, whose neighborhood contains a substantial number of genes associated with glioblastoma. The resulting gene-sets identified by our CSD analysis also contain many genes that so far have not been recognized as having a role in glioblastoma, but are good candidates for further studies. CSD may thus aid in hypothesis-generation for functional disease-associations.

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Genome-Wide Oligonucleotide Microarray Analysis of Gene-Expression Profiles of Taiwanese Patients with Anaplastic Astrocytoma and Glioblastoma Multiforme

Cited by 4 publications

References 25 publications

Heterogeneous Nuclear Ribonucleoproteins and Their Interactors Are a Major Class of Deregulated Proteins in Anaplastic Astrocytoma: A Grade III Malignant Glioma

Heterogeneous Nuclear Ribonucleoproteins and Their Interactors Are a Major Class of Deregulated Proteins in Anaplastic Astrocytoma: A Grade III Malignant Glioma

Investigating survival prognosis of glioblastoma using evolutional properties of gene networks

A composite network of conserved and tissue specific gene interactions reveals possible genetic interactions in glioma

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