Genomic profiling by DNA amplification of laser capture microdissected tissues and array CGH.

Joana Cardoso, Lia Molenaar, Renée X. de Menezes, Carla Rosenberg, Hans Morreau, Gabriela Möslein, Riccardo Fodde, Judith M. Boer

Research output: Contribution to journalArticlepeer-review

42 Citations (Scopus)

Abstract

Comparative genomic hybridization by means of BAC microarrays (array CGH) allows high-resolution profiling of copy-number aberrations in tumor DNA. However, specific genetic lesions associated with small but clinically relevant tumor areas may pass undetected due to intra-tumor heterogeneity and/or the presence of contaminating normal cells. Here, we show that the combination of laser capture microdissection, phi29 DNA polymerase-mediated isothermal genomic DNA amplification, and array CGH allows genomic profiling of very limited numbers of cells. Moreover, by means of simple statistical models, we were able to bypass the exclusion of amplification distortions and variability prone areas, and to detect tumor-specific chromosomal gains and losses. We applied this new combined experimental and analytical approach to the genomic profiling of colorectal adenomatous polyps and demonstrated our ability to accurately detect single copy gains and losses affecting either whole chromosomes or small genomic regions from as little as 2 ng of DNA or 1000 microdissected cells.

Original languageEnglish
Pages (from-to)e146
JournalNucleic Acids Research
Volume32
Issue number19
DOIs
Publication statusPublished - 2004
Externally publishedYes

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