Abstract:
:Discovery of biomarker patterns using proteomic techniques requires examination of large numbers of patient and control samples, followed by data mining of the molecular read-outs (e.g., mass spectra). Adequate signal processing and statistical analysis are critical for successful extraction of markers from these data sets. The protocol, specifically designed for use in conjunction with MALDI-TOF-MS-based serum peptide profiling, is a data analysis pipeline, starting with transfer of raw spectra that are interpreted using signal processing algorithms to define suitable features (i.e., peptides). We describe an algorithm for minimal entropy-based peak alignment across samples. Peak lists obtained in this way, and containing all samples, all peptide features and their normalized MS-ion intensities, can be evaluated, and results validated, using common statistical methods. We recommend visual inspection of the spectra to confirm all results, and have written freely available software for viewing and color-coding of spectral overlays.
journal_name
Nat Protocjournal_title
Nature protocolsauthors
Villanueva J,Philip J,DeNoyer L,Tempst Pdoi
10.1038/nprot.2007.57subject
Has Abstractpub_date
2007-01-01 00:00:00pages
588-602issue
3eissn
1754-2189issn
1750-2799pii
nprot.2007.57journal_volume
2pub_type
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