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

Pearlly S. Yan; Thomas Efferth; Hsiao Ling Chen; Jeffrey Lin; Franz Rödel; Laszlo Fuzesi; Tim H.M. Huang

doi:10.1016/S1046-2023(02)00070-1

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

Pearlly S. Yan, Thomas Efferth, Hsiao Ling Chen, Jeffrey Lin, Franz Rödel, Laszlo Fuzesi, Tim H.M. Huang

Research output: Contribution to journal › Article › peer-review

53 Scopus citations

Abstract

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 ∼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.

Original language	English (US)
Pages (from-to)	162-169
Number of pages	8
Journal	Methods
Volume	27
Issue number	2
DOIs	https://doi.org/10.1016/S1046-2023(02)00070-1
State	Published - 2002
Externally published	Yes

ASJC Scopus subject areas

General Biochemistry, Genetics and Molecular Biology
Molecular Biology

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title = "Use of CpG island microarrays to identify colorectal tumors with a high degree of concurrent methylation",

abstract = "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 ∼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.",

author = "Yan, {Pearlly S.} and Thomas Efferth and Chen, {Hsiao Ling} and Jeffrey Lin and Franz R{\"o}del and Laszlo Fuzesi and Huang, {Tim H.M.}",

note = "Funding Information: We thank Diane Peckham for assistance in the preparation of this manuscript and Dr. Sally H. Cross and colleagues from the United Kingdom Genome Mapping Project Center for providing the CGI library. This work was supported by National Cancer Institute Grants CA-69065 and CA-84701.",

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T1 - Use of CpG island microarrays to identify colorectal tumors with a high degree of concurrent methylation

AU - Yan, Pearlly S.

AU - Efferth, Thomas

AU - Chen, Hsiao Ling

AU - Lin, Jeffrey

AU - Rödel, Franz

AU - Fuzesi, Laszlo

AU - Huang, Tim H.M.

N1 - Funding Information: We thank Diane Peckham for assistance in the preparation of this manuscript and Dr. Sally H. Cross and colleagues from the United Kingdom Genome Mapping Project Center for providing the CGI library. This work was supported by National Cancer Institute Grants CA-69065 and CA-84701.

PY - 2002

Y1 - 2002

N2 - 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 ∼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.

AB - 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 ∼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.

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JO - Methods

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

Abstract

ASJC Scopus subject areas

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