Analysis of Microarray Data from Medulloblastoma Tissue Samples

Methods Mol Biol. 2022;2423:59-64. doi: 10.1007/978-1-0716-1952-0_6.

Abstract

As a laboratory tool, microarray is used to detect the expression of thousands of genes at the same time. Typically, microscope slides have DNA microarrays that are printed with thousands of tiny spots in specified positions. Each spot contains a known DNA sequence or gene. These slides are commonly referred to as gene chips or DNA chips. The DNA molecules printed to each slide serve as probes to detect gene expression, which is also known as the transcriptome or the set of messenger RNA (mRNA) transcripts expressed by a group of genes. The goal of this chapter is to discuss the steps involved computational analysis of data after the completion of a typical microarray experiment.

Keywords: Affymatrix arrays [more specific can be—GeneChip® Mouse Gene 2.0 ST Array (Affymetrix)]; Gene Set Enrichment Analysis (GSEA); KEGG (Kyoto Encyclopedia of Genes and Genomes); LIMMA (Linear Models for Microarray); Medulloblastoma; Microarray; STRING (Search Tool for Recurring Instances of Neighbouring Genes).

MeSH terms

  • Cerebellar Neoplasms*
  • Gene Expression Profiling
  • Humans
  • Medulloblastoma* / genetics
  • Oligonucleotide Array Sequence Analysis
  • Transcriptome