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Controls are an incredibly important part of your flow cytometry experiments. If not done correctly, poor controls will waste time and money. But with proper care, high-quality controls will result in high-quality data. Just be sure to ask yourself these key questions, should you be using isotype controls, do you have a quality control procedure in place, and are you following the 3 cardinal rules of compensation.

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A lot of the troubleshooting is focused on fluidics issues. If you sit down and think about your workflow, and how you might want to add a couple of little tweaks here and there which will ultimately help you improve the quality of your data as well as aid you in identifying issues before they become problems your troubleshooting will be much smoother. Consider these three things, what do you before you start collecting data, ensure you have appropriate plots of time vs fluorescence for each of the lasers your using and apply appropriate gating procedures.

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