NDLI: High-throughput methylation profiling by MCA coupled to CpG island microarray

Content Provider	PubMed Central
Author	Estécio, Marcos R. H. Yan, Pearlly S. Ibrahim, Ashraf E. K. Tellez, Carmen S. Shen, Lanlan Huang, Tim H. M. Issa, Jean-pierre J.
Copyright Year	2007
Abstract	An abnormal pattern of DNA methylation occurs at specific genes in almost all neoplasms. The lack of high-throughput methods with high specificity and sensitivity to detect changes in DNA methylation has limited its application for clinical profiling. Here we overcome this limitation and present an improved method to identify methylated genes genome-wide by hybridizing a CpG island microarray with amplicons obtained by the methylated CpG island amplification technique (MCAM). We validated this method in three cancer cell lines and 15 primary colorectal tumors, resulting in the discovery of hundreds of new methylated genes in cancer. The sensitivity and specificity of the method to detect hypermethylated loci were 88% and 96%, respectively, according to validation by bisulfite-PCR. Unsupervised hierarchical clustering segregated the tumors into the expected subgroups based on CpG island methylator phenotype classification. In summary, MCAM is a suitable technique to discover methylated genes and to profile methylation changes in clinical samples in a high-throughput fashion.
Related Links	http://dx.doi.org/10.1101/gr.6417007
Ending Page	1536
Page Count	8
Starting Page	1529
File Format	PDF
ISSN	10889051
e-ISSN	15495477
Journal	Genome Research
Issue Number	10
Volume Number	17
Language	English
Publisher	Cold Spring Harbor Laboratory Press
Publisher Date	2007-09-01
Access Restriction	Open
Rights Holder	Cold Spring Harbor Laboratory Press
Subject Keyword	Genetics(clinical) Genetics Research in Higher Education
Content Type	Text
Resource Type	Article
Subject	Genetics Genetics (clinical)

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4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
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