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of consecutive cuts of a biological sample to an MS image volume by co- registration (3D image reconstruction ) [5,11,12]. Multi-modal MSI can refer to (i) imaging of lipids, peptides, and proteins on adjacent ...
, automatically annotates vesicles. The second one depends on the reconstruction macro and is used to extract information, like vesicle diameters, vesicle volume and vesicle distances to the closest neighbor ...
either from histological serial sections with light-microscopy or directly on the whole organ using optical or tomographic sectioning. (B) Registration , a required processing for the 3D reconstruction from ...
and lactate at a nominal spatial resolution of 2.0 × 3.0 × 3.0 mm3 with near whole-brain coverage from a cohort of 18 patients with acute ischaemic stroke. Serial structural and perfusion MRI was used to define ...
slide PNG larger image TIFF original image Table 1. Data summary. https://doi.org/10.1371/journal.pbio.3002158.t001 The image processing pipeline automatically reconstructed a 3D image stack from ...
). The resultant 3D volumes were spatially normalized to a standard space using a magnetic resonance imaging (MRI) template of the mouse brain (17). To this end, an automatic registration between each single MRI ...
, then compared to predefined ranges to validate the detected cell. Automatic brain registration and annotation were performed using a procedure similar to that previously reported [22]. The 3D volumes were ...
Abstract Aims Automated coronary total plaque volume (TPV) quantification derived from coronary computed tomographic angiography (CTA) datasets provide exact and reliable assessment of calcified ...
of volumetric data that are reconstructed from 2D images (‘z-stacking’) obtained from serial thin sections using light microscopy (LMTS3D), as this method allows for analyzing large (>5 mm, up to several ...
. To systematically quantify this, vesicles were automatically extracted from tomograms, using an improved version of our 3D ART VeSElecT workflow (see S1 Fig), and then manually assigned for vesicle types by two ...
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