Cellprofiler takes a long time to start full#

Third, image cytometry individually measures each cell rather than producing a score for the entire image. Measuring a large number of features, even features undetectable by eye, has proven useful for screening as well as cytological/cytometric profiling, which can group similar genes or reveal a drug's mechanism of action. In addition to uncovering subtle samples of interest that would otherwise be missed, systems-level conclusions can be drawn directly from the quantitative measures for every image. By contrast, automated analysis rapidly produces consistent, quantitative measures for every image. Second, human-scored image analysis is qualitative, usually categorizing samples as 'hits' (where normal physiology is grossly disturbed) or 'non-hits'. In addition, image cytometry can accurately measure protein texture and localization as well as cell shape and size. Like flow cytometry, image cytometry measures the per-cell amount of protein and DNA, but can more conveniently handle hundreds of thousands of distinct samples and is also compatible with adherent cell types, time-lapse samples, and intact tissues. Image-based analysis is thus versatile, inherently multiplexed, and high in information content.

Cellprofiler takes a long time to start full#

In fact, in some cases image cytometry is absolutely required to extract the full spectrum of information present in biological images, for reasons we discuss here.įirst, while human observers typically score one or at most a few cellular features, image cytometry simultaneously yields many informative measures of cells, including the intensity and localization of each fluorescently labeled cellular component (for example, DNA or protein) within each subcellular compartment, as well as the number, size, and shape of those subcellular compartments. Still, for most applications, image cytometry (automated cell image analysis) is strongly preferable to analysis by eye. Several pioneering large screens have been scored through visual inspection by expert biologists, whose interpretive ability will not soon be replicated by a computer. However, a bottleneck exists at the image analysis stage. Advanced microscopes can now, in a single day, easily collect thousands of high resolution images of cells from time-lapse experiments and from large-scale screens using chemical compounds, RNA interference (RNAi) reagents, or expression plasmids. When cells are stained appropriately, visual analysis can reveal biological mechanisms. Examining cells by microscopy has long been a primary method for studying cellular function.