Quantitative proteomics in resected renal cancer tissue for biomarker discovery and profiling

A. Atrih, M. A. V. Mudaliar, P. Zakikhani, D. J. Lamont, J. T.-J. Huang, S. E. Bray, G. Barton, S. Fleming, G. Nabi (Lead / Corresponding author)

Research output: Contribution to journalArticlepeer-review

53 Citations (Scopus)
248 Downloads (Pure)


Proteomics-based approaches for biomarker discovery are promising strategies used in cancer research. We present state-of-art label-free quantitative proteomics method to assess proteome of renal cell carcinoma (RCC) compared with noncancer renal tissues.
Fresh frozen tissue samples from eight primary RCC lesions and autologous adjacent normal renal tissues were obtained from surgically resected tumour-bearing kidneys. Proteins were extracted by complete solubilisation of tissues using filter-aided sample preparation (FASP) method. Trypsin digested proteins were analysed using quantitative label-free proteomics approach followed by data interpretation and pathways analysis.
A total of 1761 proteins were identified and quantified with high confidence (MASCOT ion score threshold of 35 and P-value <0.05). Of these, 596 proteins were identified as differentially expressed between cancer and noncancer tissues. Two upregulated proteins in tumour samples (adipose differentiation-related protein and Coronin 1A) were further validated by immunohistochemistry. Pathway analysis using IPA, KOBAS 2.0, DAVID functional annotation and FLink tools showed enrichment of many cancer-related biological processes and pathways such as oxidative phosphorylation, glycolysis and amino acid synthetic pathways.
Our study identified a number of differentially expressed proteins and pathways using label-free proteomics approach in RCC compared with normal tissue samples. Two proteins validated in this study are the focus of on-going research in a large cohort of patients.
Original languageEnglish
Pages (from-to)1622-1633
Number of pages12
JournalBritish Journal of Cancer
Issue number6
Publication statusPublished - 2014


  • Aged
  • Aged, 80 and over
  • Carcinoma, Renal Cell
  • Female
  • Humans
  • Kidney Neoplasms
  • Male
  • Mass Spectrometry
  • Middle Aged
  • Neoplasm Proteins
  • Proteomics
  • Signal Transduction
  • Tumor Markers, Biological


Dive into the research topics of 'Quantitative proteomics in resected renal cancer tissue for biomarker discovery and profiling'. Together they form a unique fingerprint.

Cite this