title: Segmentation of multi-isotope imaging mass spectrometry data for semi-automatic detection of regions of interest.
abstract: Multi-isotope imaging mass spectrometry (MIMS) associates secondary ion mass spectrometry (SIMS) with detection of several atomic masses, the use of stable isotopes as labels, and affiliated quantitative image-analysis software. By associating image and measure, MIMS allows one to obtain quantitative information about biological processes in sub-cellular domains. MIMS can be applied to a wide range of biomedical problems, in particular metabolism and cell fate [1], [2], [3]. In order to obtain morphologically pertinent data from MIMS images, we have to define regions of interest (ROIs). ROIs are drawn by hand, a tedious and time-consuming process. We have developed and successfully applied a support vector machine (SVM) for segmentation of MIMS images that allows fast, semi-automatic boundary detection of regions of interests. Using the SVM, high-quality ROIs (as compared to an expert's manual delineation) were obtained for 2 types of images derived from unrelated data sets. This automation simplifies, accelerates and improves the post-processing analysis of MIMS images. This approach has been integrated into "Open MIMS," an ImageJ-plugin for comprehensive analysis of MIMS images that is available online at http://www.nrims.hms.harvard.edu/NRIMS_ImageJ.php.
authors.affiliation: Max Planck Institute of Psychiatry, Proteomics and Biomarkers, Munich, Germany.
authors.forename: Philipp
authors.initials: P
authors.lastname: Gormanns
authors.forename: Stefan
authors.initials: S
authors.lastname: Reckow
authors.forename: J Collin
authors.initials: JC
authors.lastname: Poczatek
authors.forename: Christoph W
authors.initials: CW
authors.lastname: Turck
authors.forename: Claude
authors.initials: C
authors.lastname: Lechene
mesh_terms: D003952:Diagnostic Imaging / Q000379:methods*; D007554:Isotopes; D013058:Mass Spectrometry / Q000379:methods*; D008722:Methods; D012984:Software; D060388:Support Vector Machine
chemical_list: D007554:Isotopes