title: Ribonucleic acid microarray analysis from lymph node samples obtained by endobronchial ultrasonography-guided transbronchial needle aspiration.
abstract: OBJECTIVE
  The aim of this study was to evaluate the feasibility of messenger RNA (mRNA) and microRNA (miRNA) expression analysis by microarray using samples obtained by endobronchial ultrasonography-guided transbronchial needle aspiration (EBUS-TBNA).
  
  
  METHODS
  We isolated total RNA from 24 archived clinical EBUS-TBNA samples. The purified RNA that met the quality threshold was used for two different kinds of microarray analyses: whole transcript-based (WT) array for mRNA expression and miRNA expression array.
  
  
  RESULTS
  The RNA from 17 of the 24 samples (71%; 12 adenocarcinoma, 3 squamous cell carcinoma, 2 poorly differentiated carcinoma) met the quality threshold. After performing a one-way analysis of variance, we found genes with significant differences in histologic subtype (p<0.01) for each of the WT and miRNA expression data sets. The samples clustered discretely according to their histologic subtypes by hierarchical clustering. After adjusting for multiple testing using the Benjamini-Hochberg false discovery rate correction, there remained 16 WT genes and 4 miRNAs with a false discovery rate of 5% or less.
  
  
  CONCLUSIONS
  Samples of EBUS-TBNA can be used for comprehensive WT and miRNA expression analysis using microarray technology.
authors.affiliation: Division of Thoracic Surgery, Toronto General Hospital, University Health Network, University of Toronto, Toronto, Ontario, Canada.
authors.forename: Takahiro
authors.initials: T
authors.lastname: Nakajima
authors.forename: Ricardo
authors.initials: R
authors.lastname: Zamel
authors.forename: Takashi
authors.initials: T
authors.lastname: Anayama
authors.forename: Hideki
authors.initials: H
authors.lastname: Kimura
authors.forename: Ichiro
authors.initials: I
authors.lastname: Yoshino
authors.forename: Shaf
authors.initials: S
authors.lastname: Keshavjee
authors.forename: Kazuhiro
authors.initials: K
authors.lastname: Yasufuku
mesh_terms: D000230:Adenocarcinoma / Q000175:diagnosis / Q000235:genetics / Q000556:secondary; D000328:Adult; D000368:Aged; D044963:Biopsy, Fine-Needle / Q000379:methods*; D001999:Bronchoscopy; D002289:Carcinoma, Non-Small-Cell Lung / Q000175:diagnosis / Q000235:genetics / Q000556:secondary; D002294:Carcinoma, Squamous Cell / Q000175:diagnosis / Q000235:genetics / Q000556:secondary; D019160:Endosonography / Q000379:methods*; D005240:Feasibility Studies; D005260:Female; D015972:Gene Expression Regulation, Neoplastic; D006801:Humans; D008175:Lung Neoplasms / Q000000981:diagnostic imaging / Q000235:genetics / Q000473:pathology*; D008198:Lymph Nodes / Q000000981:diagnostic imaging / Q000378:metabolism* / Q000473:pathology; D008207:Lymphatic Metastasis; D008297:Male; D035683:MicroRNAs / Q000032:analysis; D008875:Middle Aged; D012333:RNA, Messenger / Q000032:analysis*; D015203:Reproducibility of Results; D012189:Retrospective Studies; D046888:Tissue Array Analysis
chemical_list: D035683:MicroRNAs; D012333:RNA, Messenger