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<p>Optical pooled screens (OPS) are bottlenecked by labor-intensive in situ sequencing and analysis protocols. Here, we present OttoSeq, an automated OPS platform combining the Otto2 fluid handling system with the Brieflow analysis pipeline. We utilize OttoSeq to complete a genome-wide cell painting screen in eight days, sampling 5,198,240 high-quality cells across 21,732 gene knockout perturbations (224 cells per gene) and interpreting 320 functional gene clusters.</p>

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A one-week automated genome-wide optical pooled screen using OttoSeq

  • 期刊论文

  • 出版模式：

    开放获取

  • 发表日期：

    2026年7月3日

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  • Bryce Kirby,
  • Matteo Di Bernardo,
  • Iain M. Cheeseman,
  • Paul C. Blainey

摘要

Optical pooled screens (OPS) are bottlenecked by labor-intensive in situ sequencing and analysis protocols. Here, we present OttoSeq, an automated OPS platform combining the Otto2 fluid handling system with the Brieflow analysis pipeline. We utilize OttoSeq to complete a genome-wide cell painting screen in eight days, sampling 5,198,240 high-quality cells across 21,732 gene knockout perturbations (224 cells per gene) and interpreting 320 functional gene clusters.