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layout: minimal | ||
authors: | ||
- "[cbenoit](www.linkedin.com/in/clement-benoit)" | ||
date: 2024-02-15 | ||
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# Experimental design in the context of next generation sequencing | ||
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## Introduction | ||
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Coming from a biotechnology background, I was sensitized to the problems of experimental design. I then spent a few years as a bioinformatician, leaving this task to my platform colleagues. | ||
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As a bioinformatician, you focus on producing quality pipelines and algorithms for processing sequencer output. | ||
But we sometimes forget that, without good experimental design, we run the risk of being unable to draw conclusions, | ||
or even of unwittingly producing false positives. <br /> | ||
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Here's a brief overview of the main considerations for experience designers. | ||
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## Next generation sequencing specificities | ||
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We need to bear in mind that everything starts with biological material, from which we want to extract <b>informative</b> biological sequences, to answer a precise question. | ||
The difficulty lies in extracting useful information without confusing it with other factors: background noise, bias... | ||
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The sample is first taken from its environment, by which it will have been impacted. | ||
The interaction of the biological material with its environment, | ||
as well as the sampling carried out, already constitute a first source of variance. | ||
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# Methodology | ||
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1. **Clearly define the question posed and the technology chosen to answer it.** | ||
2. **Control the experimental variables** <br/> | ||
Variables to control can include sample preparation techniques, sequencing parameters and environmental conditions. Ensure that the impact of this factors | ||
on your data is minimized and controled to isolate the impact of the specific variables of interest, enhancing ythe reliability of the results. | ||
3. **Randomization techniques** | ||
4. **Replication Strategies** | ||
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{/* [^1], [^2], [^3] */} | ||
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{/* [^1]: Doe, J., & Smith, A. (Year). *Title of the Publication*. **Journal Name**, Volume(Issue), Page Range. [DOI](https://doi.org/xxxx) */} |