ArticleNucleic acids research2018
Tn5Prime, a Tn5 based 5' capture method for single cell RNA-seq.
Article in Nucleic acids research, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
27 citing papers in PubMed.
- Sequencing technologies to measure translation in single cells.Nature reviews. Molecular cell biology · 2025Review
- Review
- Advances in long-read single-cell transcriptomics.Human genetics · 2024Review
- Review and Evaluate the Bioinformatics Analysis Strategies of ATAC-seq and CUT&Tag Data.Genomics, proteomics & bioinformatics · 2024Review
- Applications of single-cell RNA sequencing in spermatogenesis and molecular evolution.Zoological research · 2024Review
- Addressing Cardiovascular Toxicity Risk of Electronic Nicotine Delivery Systems in the Twenty-First Century: "What Are the Tools Needed for the Job?" and "Do We Have Them?"Cardiovascular toxicology · 2024Review
- Improving the RNA velocity approach with single-cell RNA lifecycle (nascent, mature and degrading RNAs) sequencing technologies.Nucleic acids research · 2023Article
- TRACE-seq: Rapid, Low-Input, One-Tube RNA-seq Library Construction Based on Tagmentation of RNA/DNA Hybrids.Current protocols · 2023Article
- Nonproductive Hepatitis B Virus Covalently Closed Circular DNA Generates HBx-Related Transcripts from the HBx/Enhancer I Region and Acquires Reactivation by Superinfection in Single Cells.Journal of virology · 2023Article
- Approaches in Gene Coexpression Analysis in Eukaryotes.Biology · 2022Review
- Genome-Wide Profiling of Transcription Initiation with STRIPE-seq.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Maturation of 23S rRNA includes removal of helix H1 in many bacteria.RNA biology · 2021Article
- Global approaches for profiling transcription initiation.Cell reports methods · 2021Review
- Single-Cell Transcriptome Analysis as a Promising Tool to Study Pluripotent Stem Cell Reprogramming.International journal of molecular sciences · 2021Review
- Tn5 Transposase Applied in Genomics Research.International journal of molecular sciences · 2020Review
- SOX10-regulated promoter use defines isoform-specific gene expression in Schwann cells.BMC genomics · 2020Article
- RNA-Bloom enables reference-free and reference-guided sequence assembly for single-cell transcriptomes.Genome research · 2020Article
- Article
- Simple and efficient profiling of transcription initiation and transcript levels with STRIPE-seq.Genome research · 2020Article
- Single-cell RNA counting at allele and isoform resolution using Smart-seq3.Nature biotechnology · 2020Article
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5 authors.
Funding
Abstract
RNA-sequencing (RNA-seq) is a powerful technique to investigate and quantify entire transcriptomes. Recent advances in the field have made it possible to explore the transcriptomes of single cells. However, most widely used RNA-seq protocols fail to provide crucial information regarding transcription start sites. Here we present a protocol, Tn5Prime, that takes advantage of the Tn5 transposase-based Smart-seq2 protocol to create RNA-seq libraries that capture the 5' end of transcripts. The Tn5Prime method dramatically streamlines the 5' capture process and is both cost effective and reliable. By applying Tn5Prime to bulk RNA and single cell samples, we were able to define transcription start sites as well as quantify transcriptomes at high accuracy and reproducibility. Additionally, similar to 3' end-based high-throughput methods like Drop-seq and 10× Genomics Chromium, the 5' capture Tn5Prime method allows the introduction of cellular identifiers during reverse transcription, simplifying the analysis of large numbers of single cells. In contrast to 3' end-based methods, Tn5Prime also enables the assembly of the variable 5' ends of the antibody sequences present in single B-cell data. Therefore, Tn5Prime presents a robust tool for both basic and applied research into the adaptive immune system and beyond.
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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.