iCys User Guide

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Glossary Glossary of Terms interquartile range, standard deviation) can be printed out in the Region Statistics window. stepper A device that controls moving the microscope stage. controller stochiometric Measurements that are proportional to the amount of substance present. Stokes shift The wavelength difference between the light absorbed by a fluorochrome and the light emitted during fluorescence. T tab A tab is a way of moving within a dialog box. (Use the TAB key.) A group of tabs along the top of a dialog box provide you with subcategories of options. taskbar In Windows XP, a taskbar is a horizontal bar located at the bottom of your screen. A button on the taskbar indicates a program that is open. In iCys, the Taskbar displays standard tasks, usually on the right-hand side of the iCys window. text box An area in a dialog box where the user can enter text. texture The measure of the variability of fluorescent intensity of a cell. Cells that have increasing pixel values from the cell’s edge to the peak have a relatively low texture value. Cells that have undulating pixel values have relatively high texture measurements. threshold An instrument setting that is used to determine a boundary based on the intensity of the photodetector signals. The threshold assists the user in making the optimum instrument settings. Once these settings are made, the measurements on those events can be saved for later analysis. .TIF file (Tagged-Image File Format) A bitmap graphics file of an image. tissue A slide that contains many small pieces, or cores, of sample tissue. Using the microarray iNovator Application Development Toolkit, you can use iCys to label and scan tissue array samples. title bar The horizontal bar at the top of a iCys window that displays a label for the contents of the window. toolbar An area on the desktop used to place icons. The icons placed in the toolbar can be customized by the user. torus An area bounded by two user-defined contours. It is used to determine the amount of fluorescence around the perimeter of a cell and also for calculating the amount of background fluorescence. 2-parameter A color plot of the values of two user-selected parameters with color representing histogram either the density or an expression. 2-parameter histograms are set from the Scattergram menu in iCys. D-10 iCys Research Imaging Cytometer User Guide Revision B
May 6, 2005 Glossary V voltage The force that causes the movement of electrons through an electrical circuit. In a computer circuit, everything is reduced to bits (binary digit of 0 or 1). High voltage is represented by the number 1 and low voltage is represented by the number 0. W wavelength Describes the color of light. The color of the light is related to amount of energy in the photons of that light. Blue light has wavelengths of approximately 400-540 nm and its photons have relatively large amounts of energy while red light has wavelengths of approximately 600-700 nm and photons with less energy than those in blue light. Workspace The combined instrument and display settings for a given experiment.The Workspace can be saved as a file with the extension .ws.xml. Revision B iCys Research Imaging Cytometer User Guide D-11
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User Guide DOC190-0037-001 Revision
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Contents Chapter 1 Introduction Man
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May 6, 2005 Contents iCys Status Ba
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May 6, 2005 Contents Appendix B Usi
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Chapter 1 Introduction This manual
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Chapter 2 iCys Research Imaging Cyt
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Chapter 3 iCys Cytometric Analysis
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Appendix A Installing iCys Research
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Appendix B Using the iNovator Toolk
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May 6, 2005 Using the iNovator Tool
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