title: Gene expression profiles of non-small cell lung cancer: survival prediction and new biomarkers.
abstract: OBJECTIVE
  Despite the well-defined histological types of non-small cell lung cancer (NSCLC), a given stage is often associated with wide-ranging survival rates and treatment outcomes. This disparity has led to an increased demand for the discovery and identification of new informative biomarkers.
  
  
  METHODS
  In the current study, we screened 81 NSCLC samples using Illumina whole-genome gene expression microarrays in an effort to identify differentially expressed genes and new NSCLC biomarkers.
  
  
  RESULTS
  We identified novel genes whose expression was upregulated in NSCLC, including SPAG5, POLH, KIF23, and RAD54L, which are associated with mitotic spindle formation, DNA repair, chromosome segregation, and dsDNA break repair, respectively. We also identified several novel genes whose expression was downregulated in NSCLC, including SGCG, NLRC4, MMRN1, and SFTPD, which are involved in extracellular matrix formation, apoptosis, blood vessel leakage, and inflammation, respectively. We found a significant correlation between RNA degradation and survival in adenocarcinoma cases.
  
  
  CONCLUSIONS
  Even though the follow-up time was too limited to draw final conclusions, we were able to show better prediction p values in a group selection based on molecular profiles compared to histology. The current study also uncovered new candidate biomarker genes that are likely to be involved in diverse processes associated with NSCLC development.
authors.affiliation: Institute of Molecular and Cell Biology, University of Tartu, Tartu, Estonia.
authors.forename: Kristjan
authors.initials: K
authors.lastname: Välk
authors.forename: Tõnu
authors.initials: T
authors.lastname: Vooder
authors.forename: Raivo
authors.initials: R
authors.lastname: Kolde
authors.forename: Mari-Ann
authors.initials: MA
authors.lastname: Reintam
authors.forename: Cathleen
authors.initials: C
authors.lastname: Petzold
authors.forename: Jaak
authors.initials: J
authors.lastname: Vilo
authors.forename: Andres
authors.initials: A
authors.lastname: Metspalu
mesh_terms: D000230:Adenocarcinoma / Q000235:genetics / Q000401:mortality; D002282:Adenocarcinoma, Bronchiolo-Alveolar / Q000235:genetics / Q000401:mortality; D000328:Adult; D000368:Aged; D000369:Aged, 80 and over; D014408:Biomarkers, Tumor / Q000235:genetics*; D002289:Carcinoma, Non-Small-Cell Lung / Q000235:genetics* / Q000401:mortality; D002294:Carcinoma, Squamous Cell / Q000235:genetics / Q000401:mortality; D016022:Case-Control Studies; D005260:Female; D020869:Gene Expression Profiling; D006801:Humans; D008175:Lung Neoplasms / Q000235:genetics* / Q000401:mortality; D008207:Lymphatic Metastasis; D008297:Male; D008875:Middle Aged; D020411:Oligonucleotide Array Sequence Analysis; D011379:Prognosis; D012333:RNA, Messenger / Q000235:genetics; D020133:Reverse Transcriptase Polymerase Chain Reaction; D015996:Survival Rate
chemical_list: D014408:Biomarkers, Tumor; D012333:RNA, Messenger