Perturb-seq / CRISPR-Seq
What Is Perturb-seq / CRISPR-Seq?
Perturb-seq and CRISPR-Seq are single-cell techniques that integrate pooled CRISPR-based gene perturbations with single-cell RNA sequencing (scRNA-seq). This allows researchers to observe the transcriptional consequences of targeted gene knockouts, knockdowns, or activations across thousands of individual cells in parallel. Each perturbation is barcoded, enabling multiplexed functional genomics at scale.
Advantages of Perturb-seq / CRISPR-Seq
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Causal Gene Function Mapping: By linking CRISPR perturbations to single-cell transcriptomes, Perturb-seq enables direct identification of how specific genes influence cellular programs, pathways, and phenotypes — offering causal insight beyond correlative analysis.
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High-Throughput Functional Screening: Thousands of gene knockouts, knockdowns, or activations can be tested in parallel, making it possible to map genetic networks, prioritize targets, and uncover regulatory relationships at scale.
03
Single-Cell Resolution: Integrating perturbation identities with full transcriptomic profiles reveals heterogeneous responses within cell populations, helping researchers pinpoint subpopulations, off-target effects, and context-dependent gene function.
04
Broad Utility Across Disease & Discovery: Perturb-seq supports studies in oncology, immunology, neurobiology, development, and drug discovery, enabling systematic exploration of pathways involved in disease mechanisms, therapeutic resistance, and cell-state transitions.
This approach is widely used to:
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Identify gene regulatory networks and dependencies
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Characterize functional effects of genetic perturbations
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Study cell fate decisions and differentiation under perturbation
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Discover drug targets by screening gene function at single-cell resolution
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Investigate synthetic lethality and pathway rewiring in cancer models
What is Perturb-seq / CRISPR-Seq Used For?
Perturb-seq / CRISPR-Seq with AUGenomics
Sample Submission
Requires cells transduced with barcoded CRISPR constructs and prepared according to Perturb-seq protocols. Please ensure proper library integration and barcode design.
Please refer to our Shipping Guidelines for project-specific guidance.
Turnaround Time
Typical turnaround for Perturb-seq projects is 3–4 weeks from sample receipt.
Expedited options are available depending on project scope and sequencing depth.
Frequently Asked Questions (FAQs)
Q: What types of perturbations are supported?
A: We support CRISPR-Cas9 knockouts, CRISPRi/CRISPRa modulation, and shRNA screens.
Q: Can I provide my own gRNA library?
A: Yes. We can work with custom or commercial pooled libraries.
Q: Do I need to barcode each perturbation?
A: Yes. Perturbation barcodes are essential for linking genetic changes to transcriptomic data.
Q: Can this be used with primary cells or organoids?
A: Yes, if they are compatible with CRISPR delivery and barcode expression.
Got more questions? Contact our team and get a free consultation anytime. info@augenomics.com
Glossary of Terms
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Perturb-seq: A method combining CRISPR perturbations and scRNA-seq.
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CRISPR-Seq: Broad term for sequencing-based CRISPR screen readouts.
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CRISPRi/CRISPRa: CRISPR interference/activation for gene repression or upregulation.
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Barcode: A short DNA sequence used to tag and identify perturbations.
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Synthetic Lethality: A scenario where the combination of two gene disruptions is lethal to the cell.
