UNIT 14.18 Using Cell-ID 1.4 with R for Microscope-Based Cytometry
Published Online: 1 OCT 2008
Copyright © 2008 by John Wiley & Sons, Inc.
Lab Protocol Title
Current Protocols in Molecular Biology
How to Cite
Chernomoretz, A., Bush, A., Yu, R., Gordon, A. and Colman-Lerner, A. 2008. Using Cell-ID 1.4 with R for Microscope-Based Cytometry. Current Protocols in Molecular Biology. 84:14.18:14.18.1–14.18.27.
- Published Online: 1 OCT 2008
- Published Print: OCT 2008
This is not the most recent version of the article. View current version (1 OCT 2012)
This unit describes a method for quantifying various cellular parameters (e.g., volume, total and subcellular fluorescence localization) from sets of microscope images of individual cells. It includes procedures for tracking cells over time. One purposefully defocused transmission image (sometimes referred to as bright-field or BF) is acquired to locate each cell. Fluorescent images (one for each of the color channels to be analyzed) are then acquired by conventional wide-field epifluorescence or confocal microscopy. This method uses the image processing capabilities of Cell-ID (Gordon et al., 2007) and data analysis by the statistical programming framework R (R-Development-Team, 2008), which we have supplemented with a package tailored to analyze Cell-ID output. Both programs are open-source software packages. Curr. Protoc. Mol. Biol. 84:14.18.1-14.18.27. © 2008 by John Wiley & Sons, Inc.
- image processing;
- fluorescence microscopy;
- Cell-ID, R