ArticleGenome research2016
A generic, cost-effective, and scalable cell lineage analysis platform.
Article in Genome research, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 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
26 citing papers in PubMed.
- The Use of Single-Cell Mitochondrial DNA SNP Combinations for Distinguishing Organ-Specific Cell Types.Cells · 2026Article
- MitoTracer facilitates the identification of informative mitochondrial mutations for precise lineage reconstruction.PLoS computational biology · 2025Article
- Quantifying cell divisions along evolutionary lineages in cancer.Nature genetics · 2025Article
- Tracking Somatic Mutations for Lineage Reconstruction.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Short Tandem Repeats in the era of next-generation sequencing: from historical loci to population databases.European journal of human genetics : EJHG · 2024Review
- MutatedBiomolecules · 2023Article
- Single-cell methylation sequencing data reveal succinct metastatic migration histories and tumor progression models.Genome research · 2023Article
- Toward a systems-level probing of tumor clonality.iScience · 2023Review
- Accurate measurement of microsatellite length by disrupting its tandem repeat structure.Nucleic acids research · 2022Article
- An improved molecular inversion probe based targeted sequencing approach for low variant allele frequency.NAR genomics and bioinformatics · 2022Article
- Applications of Single-Cell DNA Sequencing.Annual review of genomics and human genetics · 2021Review
- Comparison of seven single cell whole genome amplification commercial kits using targeted sequencing.Scientific reports · 2021Article
- A probabilistic framework for cellular lineage reconstruction using integrated single-cell 5-hydroxymethylcytosine and genomic DNA sequencing.Cell reports methods · 2021Article
- Extracellular Vesicle-Derived DNA vs. CfDNA as a Biomarker for the Detection of Colon Cancer.Genes · 2021Article
- Retrospective cell lineage reconstruction in humans by using short tandem repeats.Cell reports methods · 2021Article
- Recurrent deletions in clonal hematopoiesis are driven by microhomology-mediated end joining.Nature communications · 2021Article
- The Role of Cell Tracing and Fate Mapping Experiments in Cardiac Outflow Tract Development, New Opportunities through Emerging Technologies.Journal of cardiovascular development and disease · 2021Review
- Review
- RETrace: simultaneous retrospective lineage tracing and methylation profiling of single cells.Genome research · 2020Article
- High-throughput dense reconstruction of cell lineages.Open biology · 2019Article
Corrections and comments
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Authors and funding
14 authors.
Funding
Abstract
Advances in single-cell genomics enable commensurate improvements in methods for uncovering lineage relations among individual cells. Current sequencing-based methods for cell lineage analysis depend on low-resolution bulk analysis or rely on extensive single-cell sequencing, which is not scalable and could be biased by functional dependencies. Here we show an integrated biochemical-computational platform for generic single-cell lineage analysis that is retrospective, cost-effective, and scalable. It consists of a biochemical-computational pipeline that inputs individual cells, produces targeted single-cell sequencing data, and uses it to generate a lineage tree of the input cells. We validated the platform by applying it to cells sampled from an ex vivo grown tree and analyzed its feasibility landscape by computer simulations. We conclude that the platform may serve as a generic tool for lineage analysis and thus pave the way toward large-scale human cell lineage discovery.
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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.