Classification of Human Lung Carcinomas by mRNA Expression Profiling Reveals Distinct Adenocarcinoma Sub-classes
AbstractWe have generated a molecular taxonomy of lung carcinoma, the leading cause of cancer death in the United States and worldwide. Using oligonucleotide microarrays, we analyzed mRNA expression levels corresponding to 12,600 transcript sequences in 186 lung tumor samples, including 139 adenocarcinomas resected from the lung. Hierarchical and probabilistic clustering of expression data defined distinct sub-classes of lung adenocarcinoma. Among these were tumors with high relative expression of neuroendocrine genes and of type II pneumocyte genes, respectively. Retrospective analysis revealed a less favorable outcome for the adenocarcinomas with neuroendocrine gene expression. The diagnostic potential of expression profiling is emphasized by its ability to discriminate primary lung adenocarcinomas from metastases of extra-pulmonary origin. These results suggest that integration of expression profile data with clinical parameters could aid in diagnosis of lung cancer patients
AuthorsArindam Bhattacharjee1,*, William G. Richards2,#, Jane Staunton3,*, Cheng Li4, Stefano Monti3, Priya Vasa1, Christine Ladd3, Javad Beheshti1, Raphael Bueno2, Michael Gillette3, Massimo Loda1, Griffin Weber1, Eugene J. Mark5, Eric S. Lander3, Wing Wong4, Bruce E. Johnson1, Todd R. Golub3,6,**, David J. Sugarbaker2,#, and Matthew Meyerson1,**

*These authors contributed equally to data analysis. #These authors contributed invaluable patient material and clinical annotation. **These authors co-directed the project.
1Department of Adult Oncology and 6Pediatric Oncology, Dana-Farber Cancer Institute, Harvard Medical School and 4Department of Biostatistics, Harvard School of Public Health, Boston, MA 02115; 2Department of Surgery, Brigham and Women's Hospital, HMS, Boston, MA.; 3Whitehead Institute/MIT Center for Genome Research, Cambridge, MA; 5Department of Pathology, Massachusetts General Hospital, Boston, MA

Publication Date11/13/2001
Contact emails Arindam_Bhattacharjee@dfci.harvard.edu
staunton@genome.wi.mit.edu
Matthew_Meyerson@dfci.harvard.edu
golub@genome.wi.mit.edu
Publication URLhttp://www.pnas.org/cgi/content/full/191502998v1
KeywordsLung; adenocarcinoma
Supplemental Information
URLs
NameURL
dfci site for data and supplementhttp://research.dfci.harvard.edu/meyersonlab/lungca/
Files
DescriptionFile
Key to scan namesdatasetA_scans.txt
Raw data (CEL files) ADENOS part 1 (~53MB)LUNG_scans_ADENO_part1.tar.gz
Raw data (CEL files) ADENOS part 2 (~53MB)LUNG_scans_ADENO_part2.tar.gz
Raw data (CEL files) ADENOS part 3 (~53MB)LUNG_scans_ADENO_part3.tar.gz
Raw data (CEL files) ADENOS part 4 (~54MB)LUNG_scans_ADENO_part4.tar.gz
Raw data (CEL files) ADENOS part 5 (~53MB)LUNG_scans_ADENO_part5.tar.gz
Raw data (CEL files) ADENOS part 6 (~53MB)LUNG_scans_ADENO_part6.tar.gz
Raw data (CEL files) ADENOS part 7 (~54MB)LUNG_scans_ADENO_part7.tar.gz
Raw data (CEL files) ADENOS part 8 (~55MB)LUNG_scans_ADENO_part8.tar.gz
Raw data (CEL files) ADENOS part 9 (~55MB)LUNG_scans_ADENO_part9.tar.gz
Raw data (CEL files) ADENOS part 10 (~53MB)LUNG_scans_ADENO_part10.tar.gz
Raw data (CEL files) Normal Lung (~48MB)LUNG_scans_NORM.tar.gz
Raw data (CEL files) Small Cell (~17MB)LUNG_scans_SMC.tar.gz
Raw data (CEL files) Squamous (~61MB)LUNG_scans_SQ.tar.gz
Raw data (CEL files) Carcinoids (~56MB)LUNG_scans_COID.tar.gz