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  • 标题:A Two-Step Soft Segmentation Procedure for MALDI Imaging Mass Spectrometry Data
  • 作者:Ilya Chernyavsky ; Theodore Alexandrov ; Peter Maass
  • 期刊名称:OASIcs : OpenAccess Series in Informatics
  • 电子版ISSN:2190-6807
  • 出版年度:2012
  • 卷号:26
  • 页码:39-48
  • DOI:10.4230/OASIcs.GCB.2012.39
  • 出版社:Schloss Dagstuhl -- Leibniz-Zentrum fuer Informatik
  • 摘要:We propose a new method for soft spatial segmentation of matrix assisted laser desorption/ionization imaging mass spectrometry (MALDI-IMS) data which is based on probabilistic clustering with subsequent smoothing. Clustering of spectra is done with the Latent Dirichlet Allocation (LDA) model. Then, clustering results are smoothed with a Markov random field (MRF) resulting in a soft probabilistic segmentation map. We show several extensions of the basic MRF model specifically tuned for MALDI-IMS data segmentation. We describe a highly parallel implementation of the smoothing algorithm based on GraphLab framework and show experimental results.
  • 关键词:MALDI imaging mass spectrometry; hyperspectral image segmentation; probabilistic graphical models; latent Dirichlet allocation; Markov random field
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