Use of CpG island microarrays to identify colorectal tumors with a high degree of concurrent methylation

Methods. 2002 Jun;27(2):162-9. doi: 10.1016/s1046-2023(02)00070-1.


We provide a comprehensive description of our microarray-based technique for the simultaneous detection of multiple CpG islands in cancer. Amplicons from tumor and control samples were pools of differentially methylated CpG island fragments hybridized to a panel of approximately 8000 CpG island tags. Data analysis identified 694 CpG island loci hypermethylated in a group of 14 colorectal tumors. The Stanford hierarchical cluster algorithm segregated the tumors into two subgroups, one of which exhibited a high level of concurrent hypermethylation while the other had little or no methylation. This is in agreement with previous observations of a CpG island methylation phenotype present in colorectal tumors. The present study demonstrates that this microarray-based technique is useful in classifying tumors according to their methylation profiles.

Publication types

  • Research Support, U.S. Gov't, P.H.S.

MeSH terms

  • Algorithms
  • Colorectal Neoplasms / diagnosis*
  • Colorectal Neoplasms / genetics
  • CpG Islands*
  • DNA Methylation*
  • DNA Probes
  • DNA, Neoplasm / metabolism
  • Fluorescent Dyes
  • Humans
  • Oligonucleotide Array Sequence Analysis / methods*
  • Polymerase Chain Reaction / methods


  • DNA Probes
  • DNA, Neoplasm
  • Fluorescent Dyes