ArticleGenome biology2019
CellTag Indexing: genetic barcode-based sample multiplexing for single-cell genomics.
Article in Genome biology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 65 papers.
What it found
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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
65 citing papers in PubMed.
- Moderated designs can balance between batch-effect mitigation and cell loss due to hashtag-assisted pooling in single-cell experiments.Genome research · 2026Article
- Single-cell RNA sequencing profiles drug activity within spatially engineered 3D cultures.Nature communications · 2026Article
- Organoids to Model Tumor Microenvironment in Progression of Pathogenesis and Treatment Resistance in Glioblastoma Multiforme.Brain sciences · 2026Review
- Technical and biological sources of noise confound multiplexed enhancer AAV screening.Nature communications · 2026Article
- CMDdemux: an efficient single cell demultiplexing method.Nucleic acids research · 2026Article
- Article
- Redefining cellular reprogramming with advanced genomic technologies.Nature reviews. Genetics · 2026Review
- Methodologies for Sample Multiplexing and Computational Deconvolution in Single-Cell Sequencing.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Review
- CLADES: a hybrid NeuralODE-Gillespie approach for unveiling clonal cell fate and differentiation dynamics.Nature communications · 2025Article
- Comparative single-cell lineage tracing identifies distinct adipocyte precursor dynamics in skin and inguinal fat.Cell stem cell · 2025Article
- Exploring the untapped potential of single-cell and spatial omics in plant biology.The New phytologist · 2025Review
- Probability of stealth multiplets in sample-multiplexing for droplet-based single-cell analysis.BMC genomics · 2025Article
- Advances in CRISPR-Cas9 in lineage tracing of model animals.Animal models and experimental medicine · 2025Review
- Advances and applications in single-cell and spatial genomics.Science China. Life sciences · 2025Review
- Enhancer AAV toolbox for accessing and perturbing striatal cell types and circuits.bioRxiv : the preprint server for biology · 2025Article
- Clonal lineage tracing and transcriptomics of cortical progenitor populations reveal maintenance of differentiation potential.Stem cell reports · 2025Article
- Atlas of multilineage stem cell differentiation reveals TMEM88 as a developmental regulator of blood pressure.Nature communications · 2025Article
- Toti-N-glycan Recognition Enables Universal Multiplexed Single-Nucleus RNA Sequencing.Research (Washington, D.C.) · 2025Article
- Single-Cell Lineage Tracing and Clonal State-Fate Analysis.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Advancements in prospective single-cell lineage barcoding and their applications in research.Genome research · 2024Review
5 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
7 authors.
Funding
Abstract
High-throughput single-cell assays increasingly require special consideration in experimental design, sample multiplexing, batch effect removal, and data interpretation. Here, we describe a lentiviral barcode-based multiplexing approach, CellTag Indexing, which uses predefined genetic barcodes that are heritable, enabling cell populations to be tagged, pooled, and tracked over time in the same experimental replicate. We demonstrate the utility of CellTag Indexing by sequencing transcriptomes using a variety of cell types, including long-term tracking of cell engraftment and differentiation in vivo. Together, this presents CellTag Indexing as a broadly applicable genetic multiplexing tool that is complementary with existing single-cell technologies.
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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.