Efficient spatial segmentation of large imaging mass spectrometry datasets with spatially aware clustering

Efficient spatial segmentation of large imaging mass spectrometry datasets with spatially aware clustering

MOTIVATION Imaging mass spectrometry (IMS) is one of the few measurement technology s of biochemistry which, given a thin sample, is able to reveal its spatial chemical composition in the full molecular range. IMS produces a hyperspectral image, where for each pixel a high-dimensional mass spectrum is measured. Currently, the technology is mature enough and one of the major problems preventing ...

Spatial segmentation of imaging mass spectrometry data with edge-preserving image denoising and clustering.

In recent years, matrix-assisted laser desorption/ionization (MALDI)-imaging mass spectrometry has become a mature technology, allowing for reproducible high-resolution measurements to localize proteins and smaller molecules. However, despite this impressive technological advance, only a few papers have been published concerned with computational methods for MALDI-imaging data. We address this ...

Spatial Clustering of Galaxies in Large Datasets

Datasets with tens of millions of galaxies present new challenges for the analysis of spatial clustering. We have built a framework, that integrates a database of object catalogs, tools for creating masks of bad regions, and a fast (NlogN) correlation code. This system has enabled unprecedented efficiency in carrying out the analysis of galaxy clustering in the SDSS catalog. A similar approach ...

Benchmark datasets for 3D MALDI- and DESI-imaging mass spectrometry

BACKGROUND Three-dimensional (3D) imaging mass spectrometry (MS) is an analytical chemistry technique for the 3D molecular analysis of a tissue specimen, entire organ, or microbial colonies on an agar plate. 3D-imaging MS has unique advantages over existing 3D imaging techniques, offers novel perspectives for understanding the spatial organization of biological processes, and has growing potent...

Imaging with mass spectrometry.