ArticleScientific reports2017
Facile single-stranded DNA sequencing of human plasma DNA via thermostable group II intron reverse transcriptase template switching.
Article in Scientific reports, 2017. 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 19 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
19 citing papers in PubMed.
- Nano3P-seq: charting the coding and noncoding transcriptome at single-molecule resolution.Nature protocols · 2025Review
- Circulating Cell-free DNA Fragmentomics Detection and Beyond.Aging and disease · 2025Review
- Human cells contain myriad excised linear intron RNAs with links to gene regulation and potential utility as biomarkers.PLoS genetics · 2024Article
- Butt-seq: a new method for facile profiling of transcription.Genes & development · 2023Article
- New Perspectives on the Importance of Cell-Free DNA Biology.Diagnostics (Basel, Switzerland) · 2022Review
- Tracing the Origin of Cell-Free DNA Molecules through Tissue-Specific Epigenetic Signatures.Diagnostics (Basel, Switzerland) · 2022Review
- TGIRT-seq Protocol for the Comprehensive Profiling of Coding and Non-coding RNA Biotypes in Cellular, Extracellular Vesicle, and Plasma RNAs.Bio-protocol · 2021Article
- Short single-stranded DNAs with putative non-canonical structures comprise a new class of plasma cell-free DNA.BMC biology · 2021Article
- Circulating nuclear DNA structural features, origins, and complete size profile revealed by fragmentomics.JCI insight · 2021Article
- Article
- A ligation-based single-stranded library preparation method to analyze cell-free DNA and synthetic oligos.BMC genomics · 2019Article
- Template-switching mechanism of a group II intron-encoded reverse transcriptase and its implications for biological function and RNA-Seq.The Journal of biological chemistry · 2019Article
- Improved TGIRT-seq methods for comprehensive transcriptome profiling with decreased adapter dimer formation and bias correction.Scientific reports · 2019Article
- Group II Intron RNPs and Reverse Transcriptases: From Retroelements to Research Tools.Cold Spring Harbor perspectives in biology · 2019Review
- Life and death of circulating cell-free DNA.Cancer biology & therapy · 2019Review
- Circulating cell-free DNA for non-invasive cancer management.Cancer genetics · 2018Review
- Novel Bioinformatics Approach Identifies Transcriptional Profiles of Lineage-Specific Transposable Elements at Distinct Loci in the Human Dorsolateral Prefrontal Cortex.Molecular biology and evolution · 2018Article
- A Highly Proliferative Group IIC Intron from Geobacillus stearothermophilus Reveals New Features of Group II Intron Mobility and Splicing.Journal of molecular biology · 2018Article
- Broad role for YBX1 in defining the small noncoding RNA composition of exosomes.Proceedings of the National Academy of Sciences of the United States of America · 2017Article
Corrections and comments
- Erratum issued
Authors and funding
2 authors.
Funding
Abstract
High-throughput single-stranded DNA sequencing (ssDNA-seq) of cell-free DNA from plasma and other bodily fluids is a powerful method for non-invasive prenatal testing, and diagnosis of cancers and other diseases. Here, we developed a facile ssDNA-seq method, which exploits a novel template-switching activity of thermostable group II intron reverse transcriptases (TGIRTs) for DNA-seq library construction. This activity enables TGIRT enzymes to initiate DNA synthesis directly at the 3' end of a DNA strand while simultaneously attaching a DNA-seq adapter without end repair, tailing, or ligation. Initial experiments using this method to sequence E. coli genomic DNA showed that the TGIRT enzyme has surprisingly robust DNA polymerase activity. Further experiments showed that TGIRT-seq of plasma DNA from a healthy individual enables analysis of nucleosome positioning, transcription factor-binding sites, DNA methylation sites, and tissues-of-origin comparably to established methods, but with a simpler workflow that captures precise DNA ends.
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Registered trials
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