ArticleNature protocols2014
Applying thiouracil tagging to mouse transcriptome analysis.
Article in Nature protocols, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed.
- Spatial mapping of RNA turnover kinetics in the mouse brain.Nature neuroscience · 2026Article
- Spatial mapping of RNA turnover kinetics and regulatory landscapes of mRNA stability in the mammalian brain.bioRxiv : the preprint server for biology · 2026Article
- Ontogeny specification and epigenetic regulation of macrophage plasticity.Frontiers in immunology · 2025Review
- Cell cycle specific, differentially tagged ribosomal proteins to measure phase specific transcriptomes from asynchronously cycling cells.Scientific reports · 2024Article
- Article
- Labeling and Isolation of Fluorouracil Tagged RNA by Cytosine Deaminase Expression.Bio-protocol · 2019Article
- Tagger-A Swiss army knife for multiomics to dissect cell type-specific mechanisms of gene expression in mice.PLoS biology · 2019Article
- Flura-seq identifies organ-specific metabolic adaptations during early metastatic colonization.eLife · 2019Article
- Global analysis of RNA metabolism using bio-orthogonal labeling coupled with next-generation RNA sequencing.Methods (San Diego, Calif.) · 2019Review
- Stem Cell Quiescence: Dynamism, Restraint, and Cellular Idling.Cell stem cell · 2019Review
- SLAM-ITseq: sequencing cell type-specific transcriptomes without cell sorting.Development (Cambridge, England) · 2018Article
- Genome-wide real-time in vivo transcriptional dynamics during Plasmodium falciparum blood-stage development.Nature communications · 2018Article
- Transcriptomic Profiling of Zebrafish Hair Cells Using RiboTag.Frontiers in cell and developmental biology · 2018Article
- Article
- Optimized Method for Robust Transcriptome Profiling of Minute Tissues Using Laser Capture Microdissection and Low-Input RNA-Seq.Frontiers in molecular neuroscience · 2017Article
- Probing the structure of ribosome assembly intermediates in vivo using DMS and hydroxyl radical footprinting.Methods (San Diego, Calif.) · 2016Article
- Effects of Combined Tristetraprolin/Tumor Necrosis Factor Receptor Deficiency on the Splenic Transcriptome.Molecular and cellular biology · 2016Article
- "Hit-and-Run" transcription: de novo transcription initiated by a transient bZIP1 "hit" persists after the "run".BMC genomics · 2016Article
- Transcriptomes of post-mitotic neurons identify the usage of alternative pathways during adult and embryonic neuronal differentiation.BMC genomics · 2015Article
- Coordinated niche-associated signals promote germline homeostasis in the Drosophila ovary.The Journal of cell biology · 2015Article
Corrections and comments
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Authors and funding
5 authors.
Funding
Abstract
Transcriptional profiling is a powerful approach for studying mouse development, physiology and disease models. Here we describe a protocol for mouse thiouracil tagging (TU tagging), a transcriptome analysis technology that includes in vivo covalent labeling, purification and analysis of cell type-specific RNA. TU tagging enables the isolation of RNA from a given cell population of a complex tissue, avoiding transcriptional changes induced by cell isolation trauma, as well as the identification of actively transcribed RNAs and not preexisting transcripts. Therefore, in contrast to other cell-specific transcriptional profiling methods based on the purification of tagged ribosomes or nuclei, TU tagging provides a direct examination of transcriptional regulation. We describe how to (i) deliver 4-thiouracil to transgenic mice to thio-label cell lineage-specific transcripts, (ii) purify TU-tagged RNA and prepare libraries for Illumina sequencing and (iii) follow a straightforward bioinformatics workflow to identify cell type-enriched or differentially expressed genes. Tissue containing TU-tagged RNA can be obtained in 1 d, RNA-seq libraries can be generated within 2 d and, after sequencing, an initial bioinformatics analysis can be completed in 1 additional day.
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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.