title: D-CAT: Density and Clustering Annotation Tool for three dimensional electron microscopic volumes.
abstract: Three dimensional (3D) electron microscopy techniques have become valuable tools for investigating cellular architecture and the processes that govern it. A vast amount of information is available in every 3D tomogram but the options for presenting this information in a clear and visually appealing way are limited. To address this, we developed D-CAT; a MatLab-application to accurately visualize the distribution of membrane proteins and/or membrane-bound structures. Presence (density) and distribution (clustering, depletion) are presented as color-coded areas on membranes. By using IMOD models both as input and output format, we ensure that the application fits within workflows common in the field of 3D electron microscopy.
authors.affiliation: Biomolecular Imaging, Faculty of Science, Utrecht University, Padualaan 8, 3584 CH Utrecht, The Netherlands.
authors.forename: M N
authors.initials: MN
authors.lastname: Lebbink
authors.forename: L H P
authors.initials: LH
authors.lastname: Hekking
authors.forename: W J C
authors.initials: WJ
authors.lastname: Geerts
authors.forename: J A
authors.initials: JA
authors.lastname: Post
mesh_terms: D002462:Cell Membrane / Q000648:ultrastructure; D016000:Cluster Analysis; D003198:Computer Simulation; D003627:Data Interpretation, Statistical; D003713:Dendritic Cells / Q000648:ultrastructure; D055032:Electron Microscope Tomography / Q000379:methods*; D006801:Humans; D021621:Imaging, Three-Dimensional; D008565:Membrane Proteins / Q000648:ultrastructure; D012984:Software
chemical_list: D008565:Membrane Proteins