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Combination of microdissection and microarray analysis to identify gene expression changes between differentially located tumour cells in breast cancer

Oncogene volume 22, pages 3742–3748 (2003)Cite this article

Abstract

Comparison of gene expression changes between cancer cells at the periphery and in the centre of breast cancers was performed using a combination of microdissection and microarray analysis. Cancer cells from the two areas were pooled separately from five patients with ductal carcinoma in situ and separately from five patients with frankly invasive cancer. Limited total RNA, 100–200 ng, from this microdissected tissue required use of the Atlas SMART™ Probe Amplification Kit to synthesize and amplify cDNA and make 33P-labelled probes. Probes were then hybridized to Atlas Human Cancer 1.2 Arrays containing 1176 known genes. Triplicate analysis revealed that 22 genes changed their expression levels in the periphery relative to the central region: 15 upregulated and seven downregulated (arbitrary threshold of 1.5-fold or greater). Differences in RNA levels were confirmed by quantitative real-time PCR for two of the genes and by changes in protein levels, detected by immunohistochemistry, for a couple of representative gene products. Thus, changes in gene expression associated with variation in microanatomical location of neoplastic cells can be detected within even small developing tumour masses.

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Abbreviations

CK 19:

cytokeratin 19

DCIS:

ductal carcinoma in situ

EF-1 α:

elongation factor 1 alpha

TSG101:

tumour susceptibility gene 101

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Author notes

  1. Gang Zhu: Supported by Cancer Research UK; China Scholarship Council

Authors and Affiliations

  1. Richard Dimbleby Department of Cancer Research/Cancer Research UK Laboratory, GKT School of Medicine, St Thomas' Hospital, London, UK

    Gang Zhu, John F Marshall & Ian R Hart

  2. Cancer Research UK Cell Adhesion and Disease Laboratory, The Rayne Institute, St Thomas' Hospital, London, UK

    Louise Reynolds

  3. Cancer Research UK, Molecular Oncology Unit, Imperial College School of Medicine at Hammersmith Campus, London, UK

    Tatjana Crnogorac-Jurcevic & Nicholas R Lemoine

  4. Clinical Oncology Department, Hedley Atkins Breast Pathology Laboratory, Guy's Hospital, London, UK

    Cheryl E Gillett, Edwin A Dublin, Diana Barnes & Corrado D'Arrigo

  5. Cancer Research UK Translational Oncology Laboratory, Queen Mary College School of Medicine, St Bartholomew's Hospital, London, UK

    Philippe O Van Trappen

Authors
  1. Gang Zhu
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  2. Louise Reynolds
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  3. Tatjana Crnogorac-Jurcevic
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  4. Cheryl E Gillett
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  5. Edwin A Dublin
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  6. John F Marshall
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  7. Diana Barnes
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  9. Philippe O Van Trappen
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Correspondence to Ian R Hart.

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Zhu, G., Reynolds, L., Crnogorac-Jurcevic, T. et al. Combination of microdissection and microarray analysis to identify gene expression changes between differentially located tumour cells in breast cancer. Oncogene 22, 3742–3748 (2003). https://doi.org/10.1038/sj.onc.1206428

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