ReviewGenome research2021
Tagmentation-based single-cell genomics.
Review in Genome research, 2021. 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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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.
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Who cites it
23 citing papers in PubMed.
- Volumetric DNA microscopy for mapping spatial transcriptomes in three dimensions.Nature protocols · 2026Review
- A practical guide to targeted single-cell RNA sequencing technologies.Communications biology · 2026Review
- ATAC-seq in Emerging Model Organisms: Challenges and Strategies.Journal of experimental zoology. Part B, Molecular and developmental evolution · 2025Review
- Pooled CRISPR screens with joint single-nucleus chromatin accessibility and transcriptome profiling.Nature biotechnology · 2025Article
- Protocol to perform assay for chromatin-bound condensates by exploratory sequencing in mouse embryonic stem cells.STAR protocols · 2025Article
- A hierarchical, count-based model highlights challenges in scATAC-seq data analysis and points to opportunities to extract finer-resolution information.Genome biology · 2025Article
- Spatially resolved genome-wide joint profiling of epigenome and transcriptome with spatial-ATAC-RNA-seq and spatial-CUT&Tag-RNA-seq.Nature protocols · 2025Review
- Whole-genome methylation profiling of extracellular vesicle DNA in gastric cancer identifies intercellular communication features.Nature communications · 2025Article
- Differential performance of strategies for single-cell whole-genome amplification.Cell reports methods · 2025Article
- Generalization of the sci-L3 method to achieve high-throughput linear amplification for replication template strand sequencing, genome conformation capture, and the joint profiling of RNA and chromatin accessibility.Nucleic acids research · 2025Article
- Depth-corrected multi-factor dissection of chromatin accessibility for scATAC-seq data with PACS.Nature communications · 2025Article
- Going beyond cell clustering and feature aggregation: Is there single cell level information in single-cell ATAC-seq data?bioRxiv : the preprint server for biology · 2024Article
- Spatially resolved epigenome sequencing via Tn5 transposition and deterministic DNA barcoding in tissue.Nature protocols · 2024Review
- OpenTn5: Open-Source Resource for Robust and Scalable Tn5 Transposase Purification and Characterization.bioRxiv : the preprint server for biology · 2024Article
- Transposition enables low-input single-molecule concurrent genomics and epigenomics.Nature genetics · 2024Article
- Nano-CUT&Tag for multimodal chromatin profiling at single-cell resolution.Nature protocols · 2024Review
- Efficient epigenetic clock measurements with TIME-seq.Nature aging · 2024Article
- Uniform quantification of single-nucleus ATAC-seq data with Paired-Insertion Counting (PIC) and a model-based insertion rate estimator.Nature methods · 2024Article
- Enhancing sensitivity and versatility of Tn5-based single cell omics.Frontiers in epigenetics and epigenomics · 2023Article
- Multiplexed Assembly and Annotation of Synthetic Biology Constructs Using Long-Read Nanopore Sequencing.ACS synthetic biology · 2022Article
Corrections and comments
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Authors and funding
1 author.
Funding
Abstract
It has been just over 10 years since the initial description of transposase-based methods to prepare high-throughput sequencing libraries, or "tagmentation," in which a hyperactive transposase is used to simultaneously fragment target DNA and append universal adapter sequences. Tagmentation effectively replaced a series of processing steps in traditional workflows with one single reaction. It is the simplicity, coupled with the high efficiency of tagmentation, that has made it a favored means of sequencing library construction and fueled a diverse range of adaptations to assay a variety of molecular properties. In recent years, this has been centered in the single-cell space with a catalog of tagmentation-based assays that have been developed, covering a substantial swath of the regulatory landscape. To date, there have been a number of excellent reviews on single-cell technologies structured around the molecular properties that can be profiled. This review is instead framed around the central components and properties of tagmentation and how they have enabled the development of innovative molecular tools to probe the regulatory landscape of single cells. Furthermore, the granular specifics on cell throughput or richness of data provided by the extensive list of individual technologies are not discussed. Such metrics are rapidly changing and highly sample specific and are better left to studies that directly compare technologies for assays against one another in a rigorously controlled framework. The hope for this review is that, in laying out the diversity of molecular techniques at each stage of these assay platforms, new ideas may arise for others to pursue that will further advance the field of single-cell genomics.
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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.