Gene expression profiling for molecular distinction and characterization of laser captured primary lung cancers

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@Article{Rohrbeck:2008:JTM,
  author =       "Astrid Rohrbeck and Judith Neukirchen and 
                 Michael Rosskopf and Guillermo G Pardillos and 
                 Helene Geddert and Andreas Schwalen and Helmut E Gabbert and 
                 Arndt {von Haeseler} and Gerald Pitschke and 
                 Matthias Schott and Ralf Kronenwett and Rainer Haas and 
                 Ulrich-Peter Rohr",
  title =        "Gene expression profiling for molecular distinction
                 and characterization of laser captured primary lung
                 cancers",
  journal =      "Journal of Translational Medicine",
  year =         "2008",
  volume =       "6",
  number =       "69",
  keywords =     "genetic algorithms, genetic programming",
  DOI =          "doi:10.1186/1479-5876-6-69",
  abstract =     "Methods

                 We examined gene expression profiles of tumor cells
                 from 29 untreated patients with lung cancer (10
                 adenocarcinomas (AC), 10 squamous cell carcinomas
                 (SCC), and 9 small cell lung cancer (SCLC)) in
                 comparison to 5 samples of normal lung tissue (NT). The
                 European and American methodological quality guidelines
                 for microarray experiments were followed, including the
                 stipulated use of laser capture microdissection for
                 separation and purification of the lung cancer tumor
                 cells from surrounding tissue.

                 Results

                 Based on differentially expressed genes, different lung
                 cancer samples could be distinguished from each other
                 and from normal lung tissue using hierarchical
                 clustering. Comparing AC, SCC and SCLC with NT, we
                 found 205, 335 and 404 genes, respectively, that were
                 at least 2-fold differentially expressed (estimated
                 false discovery rate: < 2.6percent). Different lung
                 cancer subtypes had distinct molecular phenotypes,
                 which also reflected their biological characteristics.
                 Differentially expressed genes in human lung tumors
                 which may be of relevance in the respective lung cancer
                 subtypes were corroborated by quantitative real-time
                 PCR.

                 Genetic programming (GP) was performed to construct a
                 classifier for distinguishing between AC, SCC, SCLC,
                 and NT. Forty genes, that could be used to correctly
                 classify the tumor or NT samples, have been identified.
                 In addition, all samples from an independent test set
                 of 13 further tumors (AC or SCC) were also correctly
                 classified.

                 Conclusion

                 The data from this research identified potential
                 candidate genes which could be used as the basis for
                 the development of diagnostic tools and lung tumor
                 type-specific targeted therapies.",
  notes =        "PMID: PMCID: PMC2613386",
}

Genetic Programming entries for Astrid Rohrbeck Judith Neukirchen Michael Rosskopf Guillermo G Pardillos Helene Geddert Andreas Schwalen Helmut E Gabbert Arndt von Haeseler Gerald Pitschke Matthias Schott Ralf Kronenwett Rainer Haas Ulrich-Peter Rohr

Citations