ArticleGenes to cells : devoted to molecular & cellular mechanisms2021
Visualizing looping of two endogenous genomic loci using synthetic zinc-finger proteins with anti-FLAG and anti-HA frankenbodies in living cells.
Article in Genes to cells : devoted to molecular & cellular mechanisms, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers, 1 of them a synthesis that pooled it.
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Who cites it
28 citing papers in PubMed, 1 synthesis or guideline pooled it.
- The past, present, and future of artificial zinc finger proteins: design strategies and chemical and biological applications.Journal of biological inorganic chemistry : JBIC : a publication of the Society of Biological Inorganic Chemistry · 2023Pooled it
- Live Cell Imaging of Chlamydia Inclusion Membrane Proteins Using Genetically Encoded Antibodies.Methods in molecular biology (Clifton, N.J.) · 2027Article
- UTag, a cysteine-free thermostable tagging system for tracking single mRNA translation live.Research square · 2026Article
- UTag, a cysteine-free thermostable tagging system for tracking single mRNA translation live.bioRxiv : the preprint server for biology · 2026Article
- Phage display-mediated immuno-PCR to detect low-abundance secreted proteins inProceedings of the National Academy of Sciences of the United States of America · 2026Article
- Bridging single-molecule and genome-wide studies of cellular mRNA translation.RNA (New York, N.Y.) · 2026Review
- AI-assisted protein design to rapidly convert antibody sequences to intrabodies targeting diverse peptides and histone modifications.Science advances · 2026Article
- MicroLive: an image processing toolkit for quantifying live-cell single-molecule microscopy.Bioinformatics advances · 2026Article
- SigmaR1 is an auxiliary translocon factor with lipid-binding activity that regulates protein and lipid droplet homeostasis.Nature communications · 2025Article
- A split luciferase biosensing platform for detection and imaging of chromatin loops in individual live cells.Nucleic acids research · 2025Article
- Phage display-mediated immuno-PCR to detect low-abundance secreted proteins inbioRxiv : the preprint server for biology · 2025Article
- MicroLive: An Image Processing Toolkit for Quantifying Live-cell Single-Molecule Microscopy.bioRxiv : the preprint server for biology · 2025Article
- Genetically encoded affinity reagents are a toolkit for visualizing and manipulating endogenous protein function in vivo.Nature communications · 2025Article
- All Probes Plasmids (APPs) for multicolor and long-term tracking of single-mRNA translation dynamics.Molecular biology of the cell · 2025Article
- AI-assisted protein design to rapidly convert antibody sequences to intrabodies targeting diverse peptides and histone modifications.bioRxiv : the preprint server for biology · 2025Article
- Expanding the tagging toolbox for visualizing translation live.The Biochemical journal · 2025Review
- Article
- Specialized contact sites regulate the fusion of chlamydial inclusion membranes.Nature communications · 2024Article
- Boosting the toolbox for live imaging of translation.RNA (New York, N.Y.) · 2024Article
- Translation Dynamics of Single mRNAs in Live Cells.Annual review of biophysics · 2024Review
Corrections and comments
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Authors and funding
9 authors.
Funding
Abstract
In eukaryotic nuclei, chromatin loops mediated through cohesin are critical structures that regulate gene expression and DNA replication. Here, we demonstrate a new method to see endogenous genomic loci using synthetic zinc-finger proteins harboring repeat epitope tags (ZF probes) for signal amplification via binding of tag-specific intracellular antibodies, or frankenbodies, fused with fluorescent proteins. We achieve this in two steps: First, we develop an anti-FLAG frankenbody that can bind FLAG-tagged proteins in diverse live-cell environments. The anti-FLAG frankenbody complements the anti-HA frankenbody, enabling two-color signal amplification from FLAG- and HA-tagged proteins. Second, we develop a pair of cell-permeable ZF probes that specifically bind two endogenous chromatin loci predicted to be involved in chromatin looping. By coupling our anti-FLAG and anti-HA frankenbodies with FLAG- and HA-tagged ZF probes, we simultaneously see the dynamics of the two loci in single living cells. This shows a close association between the two loci in the majority of cells, but the loci markedly separate from the triggered degradation of the cohesin subunit RAD21. Our ability to image two endogenous genomic loci simultaneously in single living cells provides a proof of principle that ZF probes coupled with frankenbodies are useful new tools for exploring genome dynamics in multiple colors.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.