ArticleGenome research2012
Transposase mediated construction of RNA-seq libraries.
Article in Genome research, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 61 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
61 citing papers in PubMed, 96 citations in OpenAlex.
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- Simultaneous profiling of chromatin architecture and transcription in single cells.Nature structural & molecular biology · 2023Article
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- TRACE-seq: Rapid, Low-Input, One-Tube RNA-seq Library Construction Based on Tagmentation of RNA/DNA Hybrids.Current protocols · 2023Article
- BaM-seq and TBaM-seq, highly multiplexed and targeted RNA-seq protocols for rapid, low-cost library generation from bacterial samples.NAR genomics and bioinformatics · 2023Article
- Bhlhe40 function in activated B and TFH cells restrains the GC reaction and prevents lymphomagenesis.The Journal of experimental medicine · 2022Article
- Tagmentation-based single-cell genomics.Genome research · 2021Review
- Limited access to antigen drives generation of early B cell memory while restraining the plasmablast response.Immunity · 2021Article
- Engineering Sensors for Gene Expression Burden.Methods in molecular biology (Clifton, N.J.) · 2021Article
- Tn5 Transposase Applied in Genomics Research.International journal of molecular sciences · 2020Review
- STAT3 and GR Cooperate to Drive Gene Expression and Growth of Basal-Like Triple-Negative Breast Cancer.Cancer research · 2020Article
- Article
- RNA sequencing by direct tagmentation of RNA/DNA hybrids.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- CLEAR: coverage-based limiting-cell experiment analysis for RNA-seq.Journal of translational medicine · 2020Article
- Lasy-Seq: a high-throughput library preparation method for RNA-Seq and its application in the analysis of plant responses to fluctuating temperatures.Scientific reports · 2019Article
- Burden-driven feedback control of gene expression.Nature methods · 2018Article
- Extraction of total RNA from single-oocytes and single-cell mRNA sequencing of swine oocytes.BMC research notes · 2018Article
- A decade of RNA virus metagenomics is (not) enough.Virus research · 2018Review
- A genome-wide interactome of DNA-associated proteins in the human liver.Genome research · 2017Article
1 more citing papers are in PubMed but not listed here.
Corrections and comments
- Erratum issued
Authors and funding
8 authors at 2 institutions in 2 countries.
Funding
Abstract
RNA-seq has been widely adopted as a gene-expression measurement tool due to the detail, resolution, and sensitivity of transcript characterization that the technique provides. Here we present two transposon-based methods that efficiently construct high-quality RNA-seq libraries. We first describe a method that creates RNA-seq libraries for Illumina sequencing from double-stranded cDNA with only two enzymatic reactions. We generated high-quality RNA-seq libraries from as little as 10 pg of mRNA (∼1 ng of total RNA) with this approach. We also present a strand-specific RNA-seq library construction protocol that combines transposon-based library construction with uracil DNA glycosylase and endonuclease VIII to specifically degrade the second strand constructed during cDNA synthesis. The directional RNA-seq libraries maintain the same quality as the nondirectional libraries, while showing a high degree of strand specificity, such that 99.5% of reads map to the expected genomic strand. Each transposon-based library construction method performed well when compared with standard RNA-seq library construction methods with regard to complexity of the libraries, correlation between biological replicates, and the percentage of reads that align to the genome as well as exons. Our results show that high-quality RNA-seq libraries can be constructed efficiently and in an automatable fashion using transposition technology.
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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.