Deregulation of ion channel and transporter encoding genes in pediatric gliomas

Marika Masselli, Pasquale Laise, Giulia Tonini, Duccio Fanelli, Serena Pillozzi, Valentina Cetica, Martina Da Ros, Iacopo Sardi, Anna Maria Buccoliero, Maurizio Aricò, Lorenzo Genitori, Andrea Becchetti, Annarosa Arcangeli

Research output: Contribution to journalArticlepeer-review

Abstract

Brain tumors, including the majority gliomas, are the leading cause of cancer-related death in children. World Health Organization has divided pediatric brain tumors into different grades and, based upon cDNA microarray data identifying gene expression profiles (GEPs), it has become evident in the last decade that the various grades involve different types of genetic alterations. However, it is not known whether ion channel and transporter genes, intimately involved in brain functioning, are associated with such GEPs. We determined the GEPs in an available cohort of 10 pediatric brain tumors initially by comparing the data obtained from four primary tumor samples and corresponding short-term cultures. The correspondence between the two types of samples was statistically significant. We then performed bioinformatic analyses on those samples (a total of nine) which corresponded to tumors of glial origin, either tissues or cell cultures, depending on the best "RNA integrity number." We used R software to evaluate the genes which were differentially expressed (DE) in gliomas compared with normal brain. Applying a p-value below 0.01 and fold change ≥4, led to identification of 2284 DE genes. Through a Functional Annotation Analysis (FAA) using the NIH-DAVID software, the DE genes turned out to be associated mainly with: immune/inflammatory response, cell proliferation and survival, cell adhesion and motility, neuronal phenotype, and ion transport. We have shown that GEPs of pediatric brain tumors can be studied using either primary tumor samples or short-term cultures with similar results. From FAA, we concluded that, among DE genes, pediatric gliomas show a strong deregulation of genes related to ion channels and transporters.

Original languageEnglish
Article numberArticle 53
JournalFrontiers in Oncology
Volume2 MAY
DOIs
Publication statusPublished - 2012

Keywords

  • Biological processes
  • Gene expression profiling
  • Ion channels and transporters
  • Pediatric gliomas
  • Short term culture

ASJC Scopus subject areas

  • Cancer Research
  • Oncology

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