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Volume 6, Issue 1

BactEXTRACT: an R Shiny app to quickly extract, plot and analyse bacterial growth and gene expression data Open Access

Abstract

To streamline the analysis and visualization of bacterial growth and gene expression data obtained by microtitre plate readers, we developed BactEXTRACT, an intuitive, easy-to-use R Shiny application. BactEXTRACT simplifies the transition from raw optical density, fluorescence and luminescence measurements to publication-ready plots. This package offers a user-friendly interface that reduces the complexity involved in growth curve and gene expression analysis and is generally applicable. BactEXTRACT is available at https://veeninglab.com/bactextract.

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  • Accepted:
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Keyword(s): bacterial growth , high-throughput data analysis , microtitre plate reader and RShiny
Funding
This study was supported by the:
  • Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung (Award 51NF40_180541)
    • Principal Award Recipient: Jan-WillemVeening
  • Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung (Award 310030_200792)
    • Principal Award Recipient: Jan-WillemVeening
  • Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung (Award 310030_192517)
    • Principal Award Recipient: Jan-WillemVeening
  • European Research Council (Award 771534-PneumoCaTChER)
    • Principal Award Recipient: Jan-WillemVeening
© 2024 The Authors
  • This is an open-access article distributed under the terms of the Creative Commons Attribution License.
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2024-01-25
2026-02-09

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/content/journal/acmi/10.1099/acmi.0.000742.v3
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BactEXTRACT: an R Shiny app to quickly extract, plot and analyse bacterial growth and gene expression data
Access Microbiology 6, 000742.v3 (2024); https://doi.org/10.1099/acmi.0.000742.v3
/content/journal/acmi/10.1099/acmi.0.000742.v3
/content/journal/acmi/10.1099/acmi.0.000742.v3
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