CaltechAUTHORS
  A Caltech Library Service

High-Throughput Method for Automated Colony and Cell Counting by Digital Image Analysis Based on Edge Detection

Choudhry, Priya (2016) High-Throughput Method for Automated Colony and Cell Counting by Digital Image Analysis Based on Edge Detection. PLoS ONE, 11 (2). Art. No. e0148469. ISSN 1932-6203. PMCID PMC4746068. http://resolver.caltech.edu/CaltechAUTHORS:20160216-103546006

[img] PDF - Published Version
Creative Commons Attribution.

5Mb
[img] PDF (S1 Appendix. ImageJ Cell_Colony_Edge Macro) - Supplemental Material
Creative Commons Attribution.

54Kb
[img] PDF (S2 Appendix. Customized versions of Cell_Colony_Edge macro for specific purposes) - Supplemental Material
Creative Commons Attribution.

39Kb
[img] PDF (S3 Appendix. Instructions for manual determination of parameters using ImageJ GUI) - Supplemental Material
Creative Commons Attribution.

46Kb
[img] PDF (S4 Appendix. Instructions for downloading and running the macro) - Supplemental Material
Creative Commons Attribution.

42Kb
[img] Image (TIFF) (S1 Fig. Image Processing steps of IMJ Edge, and selection of parameters) - Supplemental Material
Creative Commons Attribution.

2455Kb
[img] Image (TIFF) (S2 Fig. Variability in Manual measurement of bacterial colonies) - Supplemental Material
Creative Commons Attribution.

1120Kb
[img] Image (TIFF) (S3 Fig. Other methods of colony counting not tested in paper) - Supplemental Material
Creative Commons Attribution.

4Mb

Use this Persistent URL to link to this item: http://resolver.caltech.edu/CaltechAUTHORS:20160216-103546006

Abstract

Counting cells and colonies is an integral part of high-throughput screens and quantitative cellular assays. Due to its subjective and time-intensive nature, manual counting has hindered the adoption of cellular assays such as tumor spheroid formation in high-throughput screens. The objective of this study was to develop an automated method for quick and reliable counting of cells and colonies from digital images. For this purpose, I developed an ImageJ macro Cell Colony Edge and a CellProfiler Pipeline Cell Colony Counting, and compared them to other open-source digital methods and manual counts. The ImageJ macro Cell Colony Edge is valuable in counting cells and colonies, and measuring their area, volume, morphology, and intensity. In this study, I demonstrate that Cell Colony Edge is superior to other open-source methods, in speed, accuracy and applicability to diverse cellular assays. It can fulfill the need to automate colony/cell counting in high-throughput screens, colony forming assays, and cellular assays.


Item Type:Article
Related URLs:
URLURL TypeDescription
http://dx.doi.org/10.1371/journal.pone.0148469DOIArticle
http://dx.doi.org/10.1371/journal.pone.0148469PublisherArticle
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4746068/PubMed CentralArticle
Additional Information:© 2016 Priya Choudhry. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Published: February 5, 2016. Data Availability Statement: All relevant data are within the paper and its Supporting Information files. The IMJ macro, CellProfiler pipelines, and images are currently available from https://sourceforge.net/projects/cell-colony-edge/files/. Funding: The authors have no support or funding to report. The authors have declared that no competing interests exist. Author Contributions: Conceived and designed the experiments: PC. Performed the experiments: PC. Analyzed the data: PC. Contributed reagents/materials/analysis tools: PC. Wrote the paper: PC. Cellular assay, imaging, analysis, writing macro: PC.
PubMed Central ID:PMC4746068
Record Number:CaltechAUTHORS:20160216-103546006
Persistent URL:http://resolver.caltech.edu/CaltechAUTHORS:20160216-103546006
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:64499
Collection:CaltechAUTHORS
Deposited By: Tony Diaz
Deposited On:17 Feb 2016 22:26
Last Modified:17 Feb 2016 22:26

Repository Staff Only: item control page