ArticleScientific reports2017
Limitations and challenges of genetic barcode quantification.
Article in Scientific reports, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers, 1 of them a synthesis that pooled it.
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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
26 citing papers in PubMed, 1 synthesis or guideline pooled it.
- How quantitative is metabarcoding: A meta-analytical approach.Molecular ecology · 2019Pooled it
- The impact of donor and recipient age on post-transplantation clonality in murine hematopoiesis.Stem cells (Dayton, Ohio) · 2025Article
- Limitations and optimizations of cellular lineages tracking.PLoS computational biology · 2025Article
- Improving the Accuracy of Bulk Fitness Assays by Correcting Barcode Processing Biases.Molecular biology and evolution · 2024Article
- Analysis of synthetic cellular barcodes in the genome and transcriptome with BARtab and bartools.Cell reports methods · 2024Article
- Extracting, filtering and simulating cellular barcodes using CellBarcode tools.Nature computational science · 2024Article
- Multimodal cartography of human lymphopoiesis reveals B and T/NK/ILC lineages are subjected to differential regulation.iScience · 2023Article
- Detection and Quantification of Botanical Impurities in Commercial Oregano (Foods (Basel, Switzerland) · 2023Article
- Best Practices in Designing, Sequencing, and Identifying Random DNA Barcodes.Journal of molecular evolution · 2023Review
- Article
- Reduced adhesion of aged intestinal stem cells contributes to an accelerated clonal drift.Life science alliance · 2022Article
- The Reconstitution Dynamics of Cultivated Hematopoietic Stem Cells and Progenitors Is Independent of Age.International journal of molecular sciences · 2022Article
- Longitudinal Monitoring of Intra-Tumoural Heterogeneity Using Optical Barcoding of Patient-Derived Colorectal Tumour Models.Cancers · 2022Article
- Longitudinal clonal tracking in humanized mice reveals sustained polyclonal repopulation of gene-modified human-HSPC despite vector integration bias.Stem cell research & therapy · 2021Article
- Interrogation of clonal tracking data usingNature computational science · 2021Article
- The TRACE-Seq method tracks recombination alleles and identifies clonal reconstitution dynamics of gene targeted human hematopoietic stem cells.Nature communications · 2021Article
- Article
- DNA Barcoding in Nonhuman Primates Reveals Important Limitations in Retrovirus Integration Site Analysis.Molecular therapy. Methods & clinical development · 2020Article
- Clonal tracking using embedded viral barcoding and high-throughput sequencing.Nature protocols · 2020Article
- Diversity in biology: definitions, quantification and models.Physical biology · 2020Article
Corrections and comments
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Authors and funding
9 authors.
Funding
Abstract
Genetic barcodes are increasingly used to track individual cells and to quantitatively assess their clonal contributions over time. Although barcode quantification relies entirely on counting sequencing reads, detailed studies about the method's accuracy are still limited. We report on a systematic investigation of the relation between barcode abundance and resulting read counts after amplification and sequencing using cell-mixtures that contain barcodes with known frequencies ("miniBulks"). We evaluated the influence of protocol modifications to identify potential sources of error and elucidate possible limitations of the quantification approach. Based on these findings we designed an advanced barcode construct (BC32) to improved barcode calling and quantification, and to ensure a sensitive detection of even highly diluted barcodes. Our results emphasize the importance of using curated barcode libraries to obtain interpretable quantitative data and underline the need for rigorous analyses of any utilized barcode library in terms of reliability and reproducibility.
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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.