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OpenSampling

2025 · iScience · open access

Metagenome-assembled genomes enhance bacterial read decontamination and variant calling in oral samples

An et al.

The finding, in our words

This study found that a decontamination pipeline using metagenome-assembled genomes improves the accuracy of variant calling from saliva samples, showing superior concordance with blood-derived results compared to conventional methods. These results validate the potential of self-collected oral samples for accurate personal genotyping.

A paraphrase to the Library’s standard, never the abstract. The source is one link away and is always the authority.

Read the source ↗DOI 10.1016/j.isci.2025.113772PubMed 41244590

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Papers that share these labels

  1. 2018

    Telomere length measurements vary significantly depending on the sample type used, with Oragene saliva showing a moderate correlation to venous buffy coat, whereas Oasis saliva and dried blood spots did not yield comparable or adequate results for this assay.

    Evaluating minimally invasive sample collection methods for telomere length measurement — Goldman et al., American journal of human biology : the official journal of the Human Biology Council (paywalled) · source ↗

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  2. 2016

    With Oragene DISCOVER self-collection, saliva SNP-array genotypes matched blood at 99.996% concordance; about 6% of samples failed on low yield, so an occasional repeat should be expected.

    Saliva DNA quality and genotyping efficiency in a predominantly elderly population — Gudiseva et al., BMC Medical Genomics · source ↗

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  3. 2016

    ORAcollect saliva matched blood at 97.9% overall variant concordance on a hereditary-cancer NGS panel, rising to 100% for protein-coding variants, supporting self-collected saliva for germline testing.

    Validation of saliva as an alternative specimen for detecting hereditary breast-cancer mutations by next-generation sequencing — Meghnani et al., International J. Genomics · source ↗

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  4. 2026

    A UPLC-MS/MS method for linezolid and metabolites in oral fluid and VAMS capillary blood satisfied ICH M10 validation requirements. Linezolid concentrations correlated strongly with venous plasma in both matrices, offering a non‑invasive option for therapeutic drug monitoring, whereas metabolites were systematically underestimated in VAMS and seldom detectable in oral fluid, restricting metabolite measurement.

    Simultaneous quantification of linezolid and its metabolites (PNU-142300 and PNU-142586) in oral fluid and capillary blood by UPLC-MS/MS: method validation and clinical application using non-invasive sampling techniques — González-Berdullas et al., Journal of translational medicine (paywalled) · source ↗

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  5. 2023

    During ACTH stimulation, salivary cortisol correlated only weakly with serum and gave modest accuracy: saliva does not reliably replace serum cortisol for adrenal insufficiency. A concrete limit.

    Reliability of Salivary versus Serum Cortisol for Diagnosing Adrenal Insufficiency in Children — Ciancia et al., Children · source ↗

    • venous-agreement
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