SEARCH

SEARCH BY CITATION

Keywords:

  • Alignment;
  • Data quality;
  • LC-MS;
  • Mass spectrometry;
  • Quantitative Proteomics

Abstract

Comparative LC-MS is a powerful method for detailed quantitative comparison of complex protein mixtures. Dedicated software is required for detection, matching, and alignment of peaks in multiple LC-MS datasets. However, retention time shifts, saturation effects, limitations of experimental accuracy, and possible occurrence of split peaks make it difficult for software to perfectly match all chromatograms. We describe a procedure to assess the above problems and show that dataset quality can be enhanced with the aid of cluster analysis.