Open Access Methodology article

LIMPIC: a computational method for the separation of protein MALDI-TOF-MS signals from noise

Dante Mantini1, Francesca Petrucci23, Damiana Pieragostino234, Piero Del Boccio234, Marta Di Nicola23, Carmine Di Ilio23, Giorgio Federici67, Paolo Sacchetta23, Silvia Comani15 and Andrea Urbani234*

Author Affiliations

1 Istituto Tecnologie Avanzate Biomediche (ITAB), Fondazione "G. D'Annunzio", Chieti, Italy

2 Centro Studi sull'Invecchiamento (Ce.S.I.), Fondazione "G.D'Annunzio", Chieti, Italy

3 Dipartimento di Scienze Biomediche, Università "G. D'Annunzio", Chieti, Italy

4 Centro Europeo Ricerca sul Cervello (CERC), IRCCS-Fondazione S. Lucia, Roma, Italy

5 Dipartimento di Scienze Cliniche e Bioimmagini, Università "G. D'Annunzio", Chieti, Italy

6 Dipartimento di Medicina Interna, Università di Roma "Tor Vergata", Roma, Italy

7 Ospedale Pediatrico Bambino Gesù – IRCCS, Roma, Italy

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BMC Bioinformatics 2007, 8:101  doi:10.1186/1471-2105-8-101

Published: 26 March 2007

Additional files

Additional File 1:

Compressed archive containing the LIMPIC source code, implemented in MATLAB.

Format: ZIP Size: 12KB Download file

Open Data

Additional File 2:

Compressed archive of 30 text files, containing MALDI-TOF-MS data acquired from in-vitro protein mixtures. The text files are arranged in 6 folders, each referring to a different cytochrome C concentration.

Format: ZIP Size: 4.6MB Download file

Open Data

Additional File 3:

Compressed archive of 30 text files, containing MALDI-TOF-MS data acquired from human plasma samples.

Format: ZIP Size: 4.3MB Download file

Open Data

Additional File 4:

Spreadsheet of the peak positions and intensities detected with LIMPIC from the MALDI-TOF-MS data referring to human plasma samples.

Format: XLS Size: 648KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional File 5:

List of the proteins used for the comparison of LIMPIC, APEX, CENTROID and CROMWELL performances. They correspond to a subset of the proteins that are classified in the Human Plasma Proteome Project (HPPP) database and can be revealed by MALDI-TOF mass spectrometry in the m/z range 5–20 kDa.

Format: PDF Size: 13KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data