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  • Oncogenomics
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Head and neck squamous cell carcinoma transcriptome analysis by comprehensive validated differential display

Oncogene volume 25, pages 1821–1831 (2006)Cite this article

Abstract

Head and neck squamous cell carcinoma (HNSCC) is common worldwide and is associated with a poor rate of survival. Identification of new markers and therapeutic targets, and understanding the complex transformation process, will require a comprehensive description of genome expression, that can only be achieved by combining different methodologies. We report here the HNSCC transcriptome that was determined by exhaustive differential display (DD) analysis coupled with validation by different methods on the same patient samples. The resulting 820 nonredundant sequences were analysed by high throughput bioinformatics analysis. Human proteins were identified for 73% (596) of the DD sequences. A large proportion (>50%) of the remaining unassigned sequences match ESTs (expressed sequence tags) from human tumours. For the functionally annotated proteins, there is significant enrichment for relevant biological processes, including cell motility, protein biosynthesis, stress and immune responses, cell death, cell cycle, cell proliferation and/or maintenance and transport. Three of the novel proteins (TMEM16A, PHLDB2 and ARHGAP21) were analysed further to show that they have the potential to be developed as therapeutic targets.

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Acknowledgements

We thank Raymond Ripp and Frédéric Chalmel for bioinformatics, Christine Macabre for technical assistance, the Wasylyk laboratory members for support and encouragement, and the IGBMC core facilities. We thank for financial support the Ligue Nationale Française contre le Cancer (Equipe labellisée), the Ligues Départementales de Lutte contre le Cancer (Haut- and Bas-Rhin), the Association pour la Recherche sur le Cancer, BioAvenir (Aventis, Rhone-Poulenc), MNRT Reseau Genhomme, the Centre National de la Recherche Scientifique, the Institut National de la Santé et de la Recherche Médicale, and the Hôpital Universitaire de Strasbourg.

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Author notes

  1. A Cromer

    Present address: Department of Cell Biology, Harvard Medical School, 240 Longwood Avenue, Boston, MA, 02115, USA

  2. F Lemaire

    Present address: CEA Grenoble-DRDC, Laboratoire BioPuces, 17 rue des Martyrs, 38054, Grenoble, Cedex 9, France

  3. J Young

    Present address: MIMR, Monash University, Clayton, 3168, Australia

  4. C Zhao

    Present address: The Hospital for Sick Children, Dept Genetics & Genomic Biology, 555 University Avenue, Toronto, Ontario, Canada, M5G 1X8

  5. A Carles, R Millon and A Cromer: These authors contributed equally to this work.

Authors and Affiliations

  1. Institut de Génétique et de Biologie Moléculaire et Cellulaire, CNRS/INSERM/ULP, IllkirchCedex, France

    A Carles, A Cromer, G Ganguli, F Lemaire, J Young, C Wasylyk, Y Rabouel, D Dembélé, C Zhao, P Marchal, O Poch & B Wasylyk

  2. Laboratoire de Biologie Tumorale, UPRES EA 34-30, Centre Paul Strauss, Strasbourg, France

    R Millon, D Muller, I Schultz, Y Rabouel & J Abecassis

  3. Exonhit Therapeutics, Paris, France

    C Ducray & L Bracco

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  1. A Carles
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Corresponding author

Correspondence to B Wasylyk.

Additional information

Supplementary information accompanies the paper on Oncogene website (http://www.nature.com/onc).

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Carles, A., Millon, R., Cromer, A. et al. Head and neck squamous cell carcinoma transcriptome analysis by comprehensive validated differential display. Oncogene 25, 1821–1831 (2006). https://doi.org/10.1038/sj.onc.1209203

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