Bioinformatic strategies for unambiguous identification of prostate specific antigen in clinical samples |
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Authors: | Végvári Akos Rezeli Melinda Häkkinen Jari Sihlbom Carina Carlsohn Elisabet Malm Johan Lilja Hans Laurell Thomas Marko-Varga György |
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Institution: | Clinical Protein Science & Imaging, Dept. of Measurement Technology and Industrial Electrical Engineering, Lund University, BMC C13, SE-221 84 Lund, Sweden. akos.vegvari@elmat.lth.se |
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Abstract: | Prostate specific antigen (PSA), as a widely used clinical biomarker in prostate cancer diagnostics, exists in multiple molecular forms. However, all of these forms might not be recognized in a given sample by the standard immunoassays. Therefore, we have investigated PSA isoforms, separated by size, using mass spectrometric analyses. The objective of these developments was to identify and specify the various forms of PSA. To optimize successful identification of different PSA forms, we have developed a bioinformatic strategy, consisting of high resolution MALDI-MS PMF and sequencing MS/MS data searches. To improve sequence-based identification, the recently introduced Proteios software environment was employed, allowing the combination of multiple database search engines in an automated manner. We could unambiguously identify PSA in clinical samples by all detectable tryptic peptides, which were found to be common in several isoforms. |
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