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Strain E, Hahne F, Brinkman RR, et al. Analysis of High-Throughput Flow Cytometry Data Using plateCore. Adv Bioinformatics. 2009;356141doi: 10.1155/2009/356141.
Strain, E., Hahne, F., Brinkman, R. R., & Haaland, P. (2009). Analysis of High-Throughput Flow Cytometry Data Using plateCore. Advances in bioinformatics, 356141. https://doi.org/10.1155/2009/356141
Strain, Errol, et al. "Analysis of High-Throughput Flow Cytometry Data Using plateCore." Advances in bioinformatics vol. (2009): 356141. doi: https://doi.org/10.1155/2009/356141
Strain E, Hahne F, Brinkman RR, Haaland P. Analysis of High-Throughput Flow Cytometry Data Using plateCore. Adv Bioinformatics. 2009;356141. doi: 10.1155/2009/356141. Epub 2009 Oct 11. PMID: 19956418; PMCID: PMC2777006.
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Adv Bioinformatics. 2009;356141. doi: 10.1155/2009/356141. Epub 2009 Oct 11.

Analysis of High-Throughput Flow Cytometry Data Using plateCore.

Advances in bioinformatics

Errol Strain, Florian Hahne, Ryan R Brinkman, Perry Haaland

Affiliations

  1. FDA-Center for Food Safety and Nutrition, HFS-013 5100 Paint Branch Parkway, College Park, MD 20740, USA.

PMID: 19956418 PMCID: PMC2777006 DOI: 10.1155/2009/356141

Abstract

Flow cytometry (FCM) software packages from R/Bioconductor, such as flowCore and flowViz, serve as an open platform for development of new analysis tools and methods. We created plateCore, a new package that extends the functionality in these core packages to enable automated negative control-based gating and make the processing and analysis of plate-based data sets from high-throughput FCM screening experiments easier. plateCore was used to analyze data from a BD FACS CAP screening experiment where five Peripheral Blood Mononucleocyte Cell (PBMC) samples were assayed for 189 different human cell surface markers. This same data set was also manually analyzed by a cytometry expert using the FlowJo data analysis software package (TreeStar, USA). We show that the expression values for markers characterized using the automated approach in plateCore are in good agreement with those from FlowJo, and that using plateCore allows for more reproducible analyses of FCM screening data.

References

  1. BMC Bioinformatics. 2009 Apr 09;10:106 - PubMed
  2. J Immunol Methods. 2004 Sep;292(1-2):59-71 - PubMed
  3. BMC Immunol. 2005 Jun 24;6:13 - PubMed
  4. Cytometry A. 2007 Jun;71(6):393-403 - PubMed
  5. PLoS Med. 2007 May;4(5):e176 - PubMed
  6. Bioinformatics. 2008 Mar 15;24(6):878-9 - PubMed
  7. Biol Blood Marrow Transplant. 2007 Jun;13(6):691-700 - PubMed
  8. Genome Biol. 2004;5(10):R80 - PubMed
  9. BMC Bioinformatics. 2009 May 14;10:145 - PubMed

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