PALIREL, a Computer Program for Analyzing Particle-to-Membrane Relations, with Emphasis on Electron Micrographs of Immunocytochemical Preparations and Gold Labeled Molecules

• Published in: Computers and biomedical research Vol. 32; no. 2; pp. 93 - 122
• Main Authors: Ruud, H.K., Blackstad, T.W.
• Format: Journal Article
• Language: English
• Published: San Diego, CA Elsevier Inc 01.04.1999; Academic Press
• Subjects: Algorithms; Animals; Biological and medical sciences; Carrier Proteins - ultrastructure; Cell Membrane - ultrastructure; Cell physiology; Computer Graphics; Data Display; Fundamental and applied biological sciences. Psychology; Immunohistochemistry; Information Storage and Retrieval; Ion Channels - ultrastructure; Microscopy, Electron; Miscellaneous; Molecular and cellular biology; Receptors, Cell Surface - ultrastructure; Signal Processing, Computer-Assisted; Software; Synapses - ultrastructure; Immunohistochemistry; Particle; Biomedical data processing; Electron micrography; Gold; Parameter estimation; Interaction; Topography; Tagging; Biomembrane; Localization; Metabolism
• ISSN: 0010-4809; 1090-2368
• DOI: 10.1006/cbmr.1999.1508

Many vital substances, such as receptors, transporters, and ion channels, in cells occur associated with membranes. To an increasing extent their precise localization is demonstrated by immunocytochemical methods including labeling with gold particles followed by electron microscopy. PALIREL has primarily been developed to facilitate such research, enabling rapid analysis of topographic relations of particles (gold or others) to neighboring linear interfaces (membranes). After digitization of membranes and particles, the program particularly allows computation of (1) the particle number and number per unit length of membrane, in individual bins (membrane lengths) interactively defined along the membrane; (2) the distance of each particle from the membrane; (3) the particle number, and the density (number per μm2), in zones defined along (over and under) the membrane; and (4) the particle number and density in “zonebins” resulting from zones and bins being defined simultaneously. If there occurs, somewhere in the membrane, a segment of different nature, such as a synapse, the quantitative data may be had separately for that and the adjoining parts of the membrane. PALIREL allows interactive redefinition of bins, zones, or objects (particle-line files) while other definitions are retained. The results can be presented on the screen as tables and histograms and be printed on request. A dedicated graphic routine permits inspection on screen of lines, particles, zones, and bins. PALIREL is equally applicable to biological investigations of other kinds, in which the topographic relations of points (structures represented as points) to lines (boundaries) are to be examined. PALIREL is available from the authors on a noncommercial basis.