Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Related Concept Videos

You might also read

Related Articles

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

Sort by

Same author

Temporal tuning of switch-like virulence expression resolves environmental uncertainty through phenotypic heterogeneity.

Current biology : CB·2026

Same author

A tunable Cas12a platform for single-cell perturbation screening and CRISPRi.

Nature communications·2026

Same author

Positional difference in deep femoral artery during intramedullary nailing for proximal femoral fractures: a within-subject comparative study.

BMC musculoskeletal disorders·2026

Same author

Regulator-derived growth and fitness costs of <i>Salmonella</i> SPI-2 expression are environment specific and T3SS independent.

bioRxiv : the preprint server for biology·2026

Same author

Antibody Fc receptor CD16a mediates natural killer cell activation via mechanotransduction of piconewton forces.

bioRxiv : the preprint server for biology·2026

Same author

<i>Salmonella</i> sensitizes macrophages for context-dependent anti-inflammatory responses.

bioRxiv : the preprint server for biology·2026

Same journal

High-throughput DNA engineering by mating bacteria.

Cell systems·2026

Same journal

Living bacterial reservoir computers for information processing and sensing.

Cell systems·2026

Same journal

A data-driven modeling framework for mapping genotypes to synthetic microbial community functions.

Cell systems·2026

Same journal

BulkFormer: A large-scale foundation model for bulk transcriptomes.

Cell systems·2026

Same journal

Glycoform engineering of a mammalian platform to sculpt a humanized recombinant bioscavenger.

Cell systems·2026

Same journal

Targeted genomic editing of human gut Bacteroides species based on CRISPR-associated transposases.

Cell systems·2026

See all related articles

Search research articles

Related Experiment Video

Updated: Sep 29, 2025

Multiplexed Barcoding Image Analysis for Immunoprofiling and Spatial Mapping Characterization in the Single-Cell Analysis of Paraffin Tissue Samples

Multiplexed Barcoding Image Analysis for Immunoprofiling and Spatial Mapping Characterization in the Single-Cell Analysis of Paraffin Tissue Samples

Published on: April 7, 2023

A multiplexed epitope barcoding strategy that enables dynamic cellular phenotypic screens.

Takamasa Kudo¹, Keara Lane², Markus W Covert²

¹Department of Chemical and Systems Biology, Stanford University, Stanford, CA 94305, USA.

|March 22, 2022

Summary

This summary is machine-generated.

We developed EPICode, a novel method integrating live-cell imaging with pooled genetic screening for high-throughput analysis. This technique enables precise genotype-phenotype mapping with improved spatiotemporal resolution in cellular research.

Keywords:

epitope barcodes fluorescent reporters in situ genotyping pooled screen spatial multiplexing

More Related Videos

Genetic Barcoding with Fluorescent Proteins for Multiplexed Applications

Genetic Barcoding with Fluorescent Proteins for Multiplexed Applications

Published on: April 14, 2015

Multiplexed Single Cell mRNA Sequencing Analysis of Mouse Embryonic Cells

Multiplexed Single Cell mRNA Sequencing Analysis of Mouse Embryonic Cells

Published on: January 7, 2020

Related Experiment Videos

Last Updated: Sep 29, 2025

Multiplexed Barcoding Image Analysis for Immunoprofiling and Spatial Mapping Characterization in the Single-Cell Analysis of Paraffin Tissue Samples

Multiplexed Barcoding Image Analysis for Immunoprofiling and Spatial Mapping Characterization in the Single-Cell Analysis of Paraffin Tissue Samples

Published on: April 7, 2023

Genetic Barcoding with Fluorescent Proteins for Multiplexed Applications

Genetic Barcoding with Fluorescent Proteins for Multiplexed Applications

Published on: April 14, 2015

Multiplexed Single Cell mRNA Sequencing Analysis of Mouse Embryonic Cells

Multiplexed Single Cell mRNA Sequencing Analysis of Mouse Embryonic Cells

Published on: January 7, 2020

Area of Science:

Cell Biology
Genetics
Biotechnology

Background:

Pooled genetic libraries enhance genotype-phenotype mapping but are limited by selectable phenotypes with low spatiotemporal resolution.
Current screening methods struggle to capture dynamic cellular behaviors and link them directly to genetic information.

Purpose of the Study:

To integrate live-cell imaging with pooled library screening for high-throughput, high-resolution phenotypic analysis.
To develop a method enabling intracellular multiplexing and dynamic characterization of cellular phenotypes.
To establish a scalable strategy for protein engineering and drug discovery using image-based phenotyping.

Main Methods:

Developed EPICode (Epitope-based Pooled Intracellular Code) for intracellular multiplexing using short epitopes.
Integrated EPICode with live-cell microscopy for time-resolved phenotypic characterization.
Applied EPICode to engineer a dynamic, live-cell PKA kinase translocation reporter with enhanced sensitivity and specificity.

Main Results:

EPICode enables direct connection of cellular behavior to genotype through live-cell imaging.
Demonstrated improved sensitivity and specificity in a PKA kinase translocation reporter engineered using EPICode.
Showcased the scalability of using epitopes as fluorescent barcodes for high-throughput screening.

Conclusions:

EPICode offers a scalable strategy for high-throughput screening in protein engineering and drug discovery.
The method enhances the spatiotemporal resolution of phenotypic screening by enabling live-cell imaging.
EPICode facilitates detailed characterization of cellular phenotypes over time and in response to stimuli.