Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Genetic Screens02:46

Genetic Screens

Genetic screens are tools used to identify genes and mutations responsible for phenotypes of interest. Genetic screens help identify individuals or a group of people at risk of developing  genetic diseases and help them with early intervention, targeted therapy, and reproductive options.
Forward genetic screens
Forward or “classical” genetic screens involve creating random mutations in an organism’s DNA using radiation, mutagens, or insertion of additional bases, which result in visible changes...

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Affinage: genome-scale mechanistic gene annotation from the published literature.

ArXiv·2026
Same author

Brieflow: an integrated computational pipeline for high-throughput analysis of optical pooled screening data.

Nature communications·2026
Same author

A forward genetic screen identifies Sirtuin1 as a driver of neuroendocrine prostate cancer.

The Journal of experimental medicine·2026
Same author

Stitch-seq: Scalable CRISPR gene expression response profiling.

bioRxiv : the preprint server for biology·2026
Same author

The one-week automated genome-wide optical pooled screen.

bioRxiv : the preprint server for biology·2026
Same author

5' UTR length shapes alternative N-terminal protein isoforms across cancers and in rare disease.

EMBO reports·2026

Related Experiment Video

Updated: Jul 4, 2026

Competitive Genomic Screens of Barcoded Yeast Libraries
11:59

Competitive Genomic Screens of Barcoded Yeast Libraries

Published on: August 11, 2011

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

Bryce Kirby1, Matteo Di Bernardo2,3, Iain M Cheeseman2,4

  • 1Broad Institute of MIT and Harvard, 415 Main St, Cambridge, MA, 02142, USA.

Genome Biology
|July 3, 2026
PubMed
Summary

We developed OttoSeq, an automated platform for optical pooled screens (OPS), significantly reducing labor and time. This innovation enables rapid, large-scale genetic perturbation analysis for biological discovery.

Keywords:
AI-Driven scientific discoveryAutomated in situ sequencingCRISPR screeningCell paintingHigh throughput biologyHigh throughput computingLLM automated annotationOptical pooled screeningSingle-cell genomics

More Related Videos

Pooled CRISPR-Based Genetic Screens in Mammalian Cells
09:05

Pooled CRISPR-Based Genetic Screens in Mammalian Cells

Published on: September 4, 2019

Quantitative and Automated High-throughput Genome-wide RNAi Screens in C. elegans
10:58

Quantitative and Automated High-throughput Genome-wide RNAi Screens in C. elegans

Published on: February 27, 2012

Related Experiment Videos

Last Updated: Jul 4, 2026

Competitive Genomic Screens of Barcoded Yeast Libraries
11:59

Competitive Genomic Screens of Barcoded Yeast Libraries

Published on: August 11, 2011

Pooled CRISPR-Based Genetic Screens in Mammalian Cells
09:05

Pooled CRISPR-Based Genetic Screens in Mammalian Cells

Published on: September 4, 2019

Quantitative and Automated High-throughput Genome-wide RNAi Screens in C. elegans
10:58

Quantitative and Automated High-throughput Genome-wide RNAi Screens in C. elegans

Published on: February 27, 2012

Area of Science:

  • Genomics
  • Cell Biology
  • Bioinformatics

Background:

  • Optical pooled screens (OPS) are powerful for large-scale genetic screens.
  • Current OPS methods are hindered by labor-intensive sequencing and analysis.
  • A need exists for automated, high-throughput OPS solutions.

Purpose of the Study:

  • To introduce OttoSeq, an automated platform for optical pooled screens (OPS).
  • To demonstrate the efficiency and scalability of OttoSeq for genome-wide screening.
  • To streamline the process of genetic perturbation analysis.

Main Methods:

  • Integration of the Otto2 fluid handling system with the Brieflow analysis pipeline.
  • Development of an automated workflow for in situ sequencing and data interpretation.
  • Implementation of a genome-wide cell painting screen.

Main Results:

  • OttoSeq completed a genome-wide screen in eight days.
  • The platform processed 5,198,240 high-quality cells across 21,732 gene knockouts.
  • Analysis identified 320 functional gene clusters, demonstrating robust interpretation capabilities.

Conclusions:

  • OttoSeq significantly accelerates OPS by automating key processes.
  • The platform enables efficient, large-scale genetic perturbation studies.
  • Automated OPS platforms like OttoSeq are crucial for advancing biological research.