Detection of novel gene expression in paraffin-embedded tissues by isotopic in situ hybridization in tissue microarrays

J Pathol. 2001 Sep;195(1):87-96. doi: 10.1002/1096-9896(200109)195:1<87::AID-PATH932>3.0.CO;2-4.


Correlating altered gene expression patterns with particular disease states is a critical step in understanding disease processes and developing treatment strategies. Many thousands of novel gene sequences have recently been annotated in public and private databases and are now available for analysis. Tissue-specific expression patterns of these sequences can be evaluated physically on DNA arrays and other high throughput assays, or virtually by bioinformatics mining of expressed sequence tag (EST) databases. As a secondary screening tool, in situ hybridisation (ISH) not only confirms tissue specificity, but also reveals what is often valuable information about cell-type expression patterns of nov16l sequences. Due to their availability and long-term stability at room temperature, formalin-fixed paraffin-embedded clinical specimens provide an invaluable resource for evaluating expression patterns of novel human genes. We describe a high-throughput approach for identifying and quantifying the expression of novel genes in paraffin-embedded human tissues using isotopic in situ hybridisation and tissue microarrays (TMA).

Publication types

  • Review

MeSH terms

  • Blotting, Northern
  • Expressed Sequence Tags
  • Gene Expression
  • Genetic Markers
  • Humans
  • In Situ Hybridization / methods*
  • Male
  • Neoplasms / genetics*
  • Oligonucleotide Array Sequence Analysis*
  • Paraffin Embedding*
  • Polymerase Chain Reaction / methods
  • Prostate-Specific Antigen / genetics
  • Prostatic Neoplasms / genetics


  • Genetic Markers
  • Prostate-Specific Antigen