ArticleBMC genomics2014
SASI-Seq: sample assurance Spike-Ins, and highly differentiating 384 barcoding for Illumina sequencing.
Article in BMC genomics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 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
25 citing papers in PubMed.
- Minimal Residual Disease Detection: Implications for Clinical Diagnosis and Cancer Patient Treatment.MedComm · 2025Review
- A real-world multi-center RNA-seq benchmarking study using the Quartet and MAQC reference materials.Nature communications · 2024Article
- Embryo tracking system for high-throughput sequencing-based preimplantation genetic testing.Human reproduction (Oxford, England) · 2022Article
- Metagenomics next-generation sequencing tests take the stage in the diagnosis of lower respiratory tract infections.Journal of advanced research · 2022Review
- Hackflex: low-cost, high-throughput, Illumina Nextera Flex library construction.Microbial genomics · 2022Article
- Synthetic DNA spike-ins (SDSIs) enable sample tracking and detection of inter-sample contamination in SARS-CoV-2 sequencing workflows.Nature microbiology · 2022Article
- An Economical and Flexible Dual Barcoding, Two-Step PCR Approach for Highly Multiplexed Amplicon Sequencing.Frontiers in microbiology · 2021Article
- Genomic diversity ofWellcome open research · 2020Article
- Article
- Article
- Clinical Metagenomic Next-Generation Sequencing for Pathogen Detection.Annual review of pathology · 2019Review
- Sample tracking in microbiome community profiling assays using synthetic 16S rRNA gene spike-in controls.Scientific reports · 2018Article
- A systematic review on the genetics of male infertility in the era of next-generation sequencing.Arab journal of urology · 2018Article
- Is Next-Generation Sequencing the way to go for Residual Disease Monitoring in Acute Lymphoblastic Leukemia?Molecular diagnosis & therapy · 2017Review
- Statistical classifiers for diagnosing disease from immune repertoires: a case study using multiple sclerosis.BMC bioinformatics · 2017Article
- Reference standards for next-generation sequencing.Nature reviews. Genetics · 2017Review
- Synthetic spike-in standards for high-throughput 16S rRNA gene amplicon sequencing.Nucleic acids research · 2017Article
- Registry in a tube: multiplexed pools of retrievable parts for genetic design space exploration.Nucleic acids research · 2017Article
- Evolution of B cell analysis and Env trimer redesign.Immunological reviews · 2017Review
- The plasma virome of febrile adult Kenyans shows frequent parvovirus B19 infections and a novel arbovirus (Kadipiro virus).The Journal of general virology · 2016Article
Corrections and comments
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Authors and funding
8 authors.
Funding
Abstract
backgroundA minor but significant fraction of samples subjected to next-generation sequencing methods are either mixed-up or cross-contaminated. These events can lead to false or inconclusive results. We have therefore developed SASI-Seq; a process whereby a set of uniquely barcoded DNA fragments are added to samples destined for sequencing. From the final sequencing data, one can verify that all the reads derive from the original sample(s) and not from contaminants or other samples.
resultsBy adding a mixture of three uniquely barcoded amplicons, of different sizes spanning the range of insert sizes one would normally use for Illumina sequencing, at a spike-in level of approximately 0.1%, we demonstrate that these fragments remain intimately associated with the sample. They can be detected following even the tightest size selection regimes or exome enrichment and can report the occurrence of sample mix-ups and cross-contamination.As a consequence of this work, we have designed a set of 384 eleven-base Illumina barcode sequences that are at least 5 changes apart from each other, allowing for single-error correction and very low levels of barcode misallocation due to sequencing error.
conclusionSASI-Seq is a simple, inexpensive and flexible tool that enables sample assurance, allows deconvolution of sample mix-ups and reports levels of cross-contamination between samples throughout NGS workflows.
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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.