title: Simultaneous proteomic and genomic analysis of primary Ta urothelial cell carcinomas for the prediction of tumor recurrence.
abstract: BACKGROUND
  The prediction of tumor recurrence in patients with Ta urothelial cell carcinoma is inaccurate and new prognostic markers are desirable.
  
  
  METHODS
  Surface-enhanced laser-desorption ionization time-of-flight mass spectrometry (SELDI-TOF MS) was performed on 33 primary Ta tumors (16 and 17 tumors were from patients with long and short recurrence-free periods, respectively) and data were compared to previously obtained mRNA expression profiles of 49 genes.
  
  
  RESULTS
  The intensities of a protein peak at m/z 33331 varied most significantly between the two patient groups (p = 0.0048). This was comparable to survivin, whose mRNA expression differed most significantly (p = 0.0042) of the 49 genes. ROC analysis revealed an area under the curve for protein peak 33331 and survivin of 0.78 (95% CI, 0.62-0.94) and 0.79 (95% CI, 0.63-0.94), respectively. Protein peak 33331 and survivin identified 3 (17%) and 8 (47%) patients with a recurrence-free period of at least 4 years, respectively, without generating false-negatives.
  
  
  CONCLUSIONS
  These findings indicate that SELDI-TOF MS and real-time Q-PCR analysis on the same tissue can result in the identification of markers with comparable differential expression. Such combined analyses may yield combinations of several markers that might improve disease prognosis.
authors.affiliation: Departments of Clinical Chemistry, Radboud University Nijmegen Medical Center, PO Box 9101, 6500 HB Nijmegen, The Netherlands.
authors.forename: Iman J
authors.initials: IJ
authors.lastname: Schultz
authors.forename: Jacques B
authors.initials: JB
authors.lastname: De Kok
authors.forename: J Alfred
authors.initials: JA
authors.lastname: Witjes
authors.forename: Marko
authors.initials: M
authors.lastname: Babjuk
authors.forename: Johannes L
authors.initials: JL
authors.lastname: Willems
authors.forename: Kenneth
authors.initials: K
authors.lastname: Wester
authors.forename: Dorine W
authors.initials: DW
authors.lastname: Swinkels
authors.forename: Harold
authors.initials: H
authors.lastname: Tjalsma
mesh_terms: D000328:Adult; D000368:Aged; D014408:Biomarkers, Tumor / Q000096:biosynthesis / Q000235:genetics / Q000302:isolation & purification; D002295:Carcinoma, Transitional Cell / Q000737:chemistry / Q000235:genetics* / Q000378:metabolism*; D005260:Female; D023281:Genomics; D006801:Humans; D008297:Male; D008875:Middle Aged; D009363:Neoplasm Proteins / Q000096:biosynthesis* / Q000235:genetics* / Q000302:isolation & purification; D009364:Neoplasm Recurrence, Local / Q000737:chemistry / Q000235:genetics / Q000378:metabolism; D011237:Predictive Value of Tests; D040901:Proteomics; D012333:RNA, Messenger / Q000096:biosynthesis / Q000235:genetics; D019032:Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / Q000379:methods; D001749:Urinary Bladder Neoplasms / Q000737:chemistry / Q000235:genetics* / Q000378:metabolism*
chemical_list: D014408:Biomarkers, Tumor; D009363:Neoplasm Proteins; D012333:RNA, Messenger