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        <r:String xml:lang="en">Data and code related to "Molecular kinetics dictate population dynamics in CRISPR-based plasmid defense"</r:String>
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          <r:String xml:lang="sv">Uppsala universitet</r:String>
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          <r:String xml:lang="sv">Uppsala universitet</r:String>
          <r:String xml:lang="en">Uppsala University</r:String>
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      <r:Content xml:lang="en">Understanding and manipulating the spread of mobile genetic elements (MGEs) represents a great challenge with potential benefits across synthetic biology, agriculture and medicine. In this study, we use a time-lapse, imaging-based approach to characterize conjugative plasmid dynamics at the molecular, single-cell, and population levels.

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Specifically, the image analysis code contained here performs segmentation, fluorescent dot detection, and cell classification to track conjugative plasmid population dynamics in microfluidic growth chambers. The bioinformatic analysis code performs a comparative analysis of CRISPR spacer and toxin-antitoxin system presence across a broad range of bacterial plasmids. 

Finally, the agent-based simulation code facilitates simulations of plasmid population dynamics in bacterial populations. Using this code, we can simulate plasmid population dynamics using single-cell biophysical parameters as inputs, and directly compare with experimental imaging-based data.</r:Content>
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