Identification of genes with specific expression in pancreatic cancer by cDNA representational difference analysis

Genes Chromosomes Cancer. 1997 Jun;19(2):97-103. doi: 10.1002/(sici)1098-2264(199706)19:2<97::aid-gcc5>;2-v.


cDNA representational difference analysis (cDNA-RDA) is a polymerase-chain-reaction-coupled subtractive and kinetic enrichment procedure for the isolation of differentially expressed genes. In this study, the technique was used to isolate novel genes specifically expressed in pancreatic cancer. cDNA-RDA was done on cDNA reverse transcribed from a poly(A)+ mRNA pool made from 10 cancer tissues (tester) by using as a driver a cDNA from a poly(A)+ mRNA pool made from a combination of 10 tissues of chronic pancreatitis and 10 healthy pancreatic tissues. The use of chronic pancreatitis in addition to healthy pancreas mRNA in the driver preparation eliminated the influence of stromal tissue components present as contamination in the cancer-specific preparations. Such cDNA-RDA led to the isolation of 16 distinct, cancer-specific gene fragments. These were confirmed to be overexpressed in pancreatic cancer tissues by Northern blot analysis. Sequence analysis revealed homologies to five genes previously implicated in the carcinogenesis of the pancreas or other tissues. Eleven fragments had no significant homology to any known gene and thus represent novel candidate disease genes. The experiments demonstrate that cDNA-RDA is a reproducible and highly efficient method for the identification of novel genes with cancer-specific expression.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Annexin A3 / genetics
  • Base Sequence
  • DNA, Complementary
  • DNA, Neoplasm / analysis*
  • Fibronectins / genetics
  • Gene Expression
  • Humans
  • Insulin-Like Growth Factor Binding Protein 1 / genetics
  • Keratins / genetics
  • Molecular Sequence Data
  • Pancreatic Neoplasms / genetics*
  • Pancreatic Neoplasms / pathology
  • Pancreatitis / genetics
  • Pancreatitis / pathology
  • Polymerase Chain Reaction*


  • DNA, Complementary
  • DNA, Neoplasm
  • Fibronectins
  • Insulin-Like Growth Factor Binding Protein 1
  • Keratins
  • Annexin A3

Associated data

  • GENBANK/U54592
  • GENBANK/U54593
  • GENBANK/U54594
  • GENBANK/U54595
  • GENBANK/U54596
  • GENBANK/U54597
  • GENBANK/U54598
  • GENBANK/U54599
  • GENBANK/U54600
  • GENBANK/U54601
  • GENBANK/U54602
  • GENBANK/U54603
  • GENBANK/U54604
  • GENBANK/U54605
  • GENBANK/U54606
  • GENBANK/U54607