Automatic Stem Cell Detection in Microscopic Whole Mouse Cryo-Imaging.

ABSTRACT: With its single cell sensitivity over volumes as large as or larger than a mouse, cryo-imaging enables imaging of stem cell biodistribution, homing, engraftment, and molecular mechanisms. We developed and evaluated a highly automated software tool to detect fluorescently labeled stem cells within very large ( ∼ 200 GB) cryo-imaging datasets. Cell detection steps are: preprocess, remove immaterial regions, spatially filter to create features, identify candidate pixels, classify pixels using bagging decision trees, segment cell patches, and perform 3D labeling. There are options for analysis and visualization. To train the classifier, we created synthetic images by placing realistic digital cell models onto cryo-images of control mice devoid of cells. Very good cell detection results were (p

SUBMITTER: Wuttisarnwattana P 

PROVIDER: S-EPMC4873963 | biostudies-literature | 2016 Mar

REPOSITORIES: biostudies-literature