ArticleGenome biology2019
BART-Seq: cost-effective massively parallelized targeted sequencing for genomics, transcriptomics, and single-cell analysis.
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 18 papers.
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Who cites it
18 citing papers in PubMed.
- A practical guide to targeted single-cell RNA sequencing technologies.Communications biology · 2026Review
- RoCK and ROI: single-cell transcriptomics with multiplexed enrichment of selected transcripts and region-specific sequencing.Nature communications · 2025Article
- From Panels to Pathogen Networks: The Expanding Role of Targeted Sequencing in Veterinary Medicine.Biology · 2025Review
- Large-Scale Rice Mutant Establishment and High-Throughput Mutant Manipulation Help Advance Rice Functional Genomics.Plants (Basel, Switzerland) · 2025Review
- lncRNA-WAL Promotes Triple-Negative Breast Cancer Aggression by Inducing β-Catenin Nuclear Translocation.Molecular cancer research : MCR · 2024Article
- A hybrid demultiplexing strategy that improves performance and robustness of cell hashing.Briefings in bioinformatics · 2024Article
- CRISPR screening in hematology research: from bulk to single-cell level.Journal of hematology & oncology · 2023Review
- New approach methodologies to facilitate and improve the hazard assessment of non-genotoxic carcinogens-a PARC project.Frontiers in toxicology · 2023Review
- Adding gene transcripts into genomic prediction improves accuracy and reveals sampling time dependence.G3 (Bethesda, Md.) · 2022Article
- Sample-multiplexing approaches for single-cell sequencing.Cellular and molecular life sciences : CMLS · 2022Review
- Prime-seq, efficient and powerful bulk RNA sequencing.Genome biology · 2022Article
- Multiplexing Methods for Simultaneous Large-Scale Transcriptomic Profiling of Samples at Single-Cell Resolution.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2021Review
- scPNMF: sparse gene encoding of single cells to facilitate gene selection for targeted gene profiling.Bioinformatics (Oxford, England) · 2021Article
- Merging Genomics and Transcriptomics for Predicting Fusarium Head Blight Resistance in Wheat.Genes · 2021Article
- HyPR-seq: Single-cell quantification of chosen RNAs via hybridization and sequencing of DNA probes.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- Oligonucleotide Probe for TranscriptomeACS chemical biology · 2020Article
- Targeted Perturb-seq enables genome-scale genetic screens in single cells.Nature methods · 2020Article
- BART-Seq: cost-effective massively parallelized targeted sequencing for genomics, transcriptomics, and single-cell analysis.Genome biology · 2019Article
Corrections and comments
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Authors and funding
10 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We describe a highly sensitive, quantitative, and inexpensive technique for targeted sequencing of transcript cohorts or genomic regions from thousands of bulk samples or single cells in parallel. Multiplexing is based on a simple method that produces extensive matrices of diverse DNA barcodes attached to invariant primer sets, which are all pre-selected and optimized in silico. By applying the matrices in a novel workflow named Barcode Assembly foR Targeted Sequencing (BART-Seq), we analyze developmental states of thousands of single human pluripotent stem cells, either in different maintenance media or upon Wnt/β-catenin pathway activation, which identifies the mechanisms of differentiation induction. Moreover, we apply BART-Seq to the genetic screening of breast cancer patients and identify BRCA mutations with very high precision. The processing of thousands of samples and dynamic range measurements that outperform global transcriptomics techniques makes BART-Seq first targeted sequencing technique suitable for numerous research applications.
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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.