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  • Oncogenomics
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Expression profiling of primary non-small cell lung cancer for target identification

Oncogene volume 21, pages 7749–7763 (2002)Cite this article

Abstract

Using a panel of cDNA microarrays comprising 47 650 transcript elements, we have carried out a dual-channel analysis of gene expression in 39 resected primary human non-small cell lung tumours versus normal lung tissue. Whilst ∼11 000 elements were scored as differentially expressed at least twofold in at least one sample, 96 transcripts were scored as over-represented fourfold or more in at least seven out of 39 tumours and 30 sequences 16-fold in at least two out of 39 tumours, including 24 transcripts in common. Transcripts (178) were found under-represented fourfold in at least seven out of 39 tumours, 31 of which are under-represented 16-fold in at least two out of 39 lesions. The relative expression levels of representative genes from these lists were analysed by comparative multiplex RT–PCR and found to be broadly consistent with the microarray data. Two dramatically over-represented genes, previously designated as potential tumour suppressors in breast (maspin) and lung and breast (S100A2) cancers, were analysed more extensively and demonstrate the effectiveness of this approach in identifying potential lung cancer diagnostic or therapeutic targets. Whilst it has been reported that S100A2 is downregulated in NSCLC at an early stage, our microarray, cmRT–PCR, Western and immunohistochemistry data indicate that it is strongly expressed in the majority of tumours.

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Acknowledgements

This study would not have been possible without clinical material. We would therefore like to thank the patients who allowed us to use their tissues and we would like to thank the clinical teams in Liverpool and Bern who collected, characterized and stored that material. We would also like to thank Helen Scott, and Melanie Hubert for sectioning, staining and imaging the tissues, Suzanne Watson for the S100A2 IHC, Naomi Bowers for bioinformatics support and Tricia Mitchell for the TaqMan experiments. The Roy Castle Lung Cancer Foundation funded the UK-based component of this work. DC Betticher and D Ratschiller are funded by Swiss Cancer League (Grant KFS 703-8-1998) and the clinical material from the neo-adjuvant patients was collected and analysed by M Gugger as part of SAKK (Swiss Group for Clinical Cancer Research) study 16/96 (chaired by DC Betticher).

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Authors and Affiliations

  1. Target Identification Group, Roy Castle International Centre for Lung Cancer Research, University of Liverpool, 200 London Road, Liverpool, L3 9TA, UK

    Jim Heighway, Teresa Knapp, Lenetta Boyce, Shelley Brennand & John K Field

  2. Institute of Medical Oncology, University of Bern, Bern, 3010, Switzerland

    Daniel C Betticher, Daniel Ratschiller & Mathias Gugger

  3. Incyte Genomics Inc., 3160 Porter Drive, Palo Alto, 94304, California, CA, USA

    Michael Donovan, Amy Lasek & Paula Rickert

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  1. Jim Heighway
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  2. Teresa Knapp
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  3. Lenetta Boyce
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Correspondence to Jim Heighway or Paula Rickert.

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Heighway, J., Knapp, T., Boyce, L. et al. Expression profiling of primary non-small cell lung cancer for target identification. Oncogene 21, 7749–7763 (2002). https://doi.org/10.1038/sj.onc.1205979

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