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result(s) for
"Braybrook, Julian H."
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Standards and Metrology for Viral Vectors as Molecular Tools: Outcomes from a CCQM Workshop
by
Cleveland, Thomas E.
,
Huggett, Jim F.
,
Khan, Arifa S.
in
analytical methods
,
Biotechnology
,
characterisation
2024
Viral vectors are agents enabling gene transfer and genome editing and have widespread utility across the healthcare and biotechnology sectors. In January 2023, the International Bureau for Weights and Measures’ Consultative Committee for Amount of Substance (CCQM) held a workshop on Metrology for Viral systems as molecular tools. The workshop brought together international leaders from across regulatory, industry, government science, and metrology sectors to better understand key challenges for the community: Exploring current limitations in the measurement of virus-derived, virus-based, and virus-like systems in terms of quantification and characterisation; surveying the state-of-the-art in analytical methods and reference material provision for these entities; and initiating a dialog for the strategic development and implementation of suitable standardisation approaches for this sector. This article presents the workshop background and rationale, presentation summaries, conclusions, and recommendations.
Journal Article
The Dangers of Using Cq to Quantify Nucleic Acid in Biological Samples: A Lesson From COVID-19
by
Braybrook, Julian
,
Vandesompele, Jo
,
Kammel, Martin
in
Belgium
,
Biological properties
,
Biological samples
2022
Abstract
Background
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) RNA quantities, measured by reverse transcription quantitative PCR (RT-qPCR), have been proposed to stratify clinical risk or determine analytical performance targets. We investigated reproducibility and how setting diagnostic cutoffs altered the clinical sensitivity of coronavirus disease 2019 (COVID-19) testing.
Methods
Quantitative SARS-CoV-2 RNA distributions [quantification cycle (Cq) and copies/mL] from more than 6000 patients from 3 clinical laboratories in United Kingdom, Belgium, and the Republic of Korea were analyzed. Impact of Cq cutoffs on clinical sensitivity was assessed. The June/July 2020 INSTAND external quality assessment scheme SARS-CoV-2 materials were used to estimate laboratory reported copies/mL and to estimate the variation in copies/mL for a given Cq.
Results
When the WHO-suggested Cq cutoff of 25 was applied, the clinical sensitivity dropped to about 16%. Clinical sensitivity also dropped to about 27% when a simulated limit of detection of 106 copies/mL was applied. The interlaboratory variation for a given Cq value was >1000 fold in copies/mL (99% CI).
Conclusion
While RT-qPCR has been instrumental in the response to COVID-19, we recommend Cq (cycle threshold or crossing point) values not be used to set clinical cutoffs or diagnostic performance targets due to poor interlaboratory reproducibility; calibrated copy-based units (used elsewhere in virology) offer more reproducible alternatives. We also report a phenomenon where diagnostic performance may change relative to the effective reproduction number. Our findings indicate that the disparities between patient populations across time are an important consideration when evaluating or deploying diagnostic tests. This is especially relevant to the emergency situation of an evolving pandemic.
Journal Article
Arsenic Speciation in Tobacco and Cigarette Smoke
2012
Arsenic is one of the metals found in cured tobacco and mainstream cigarette smoke. Levels of arsenic in modern filtered cigarette smoke range from sub-ppm to a few tens of ppms. To enable accurate smoke toxicity assessment on arsenic in cigarette smoke, it is desirable to establish its chemical forms in addition to total quantities because different arsenic compounds possess different toxicological potentials.Progress has been made on measuring the arsenic speciation in tobacco and mainstream cigarette smoke by using a combination of synchrotron-based X-ray absorption spectroscopy and high-performance liquid chromatography- inductively coupled plasma mass spectrometry (HPLC-ICP-MS). In this paper, we describe the experimental procedures developed together with the main findings. A transient redox transformation between As(V) and As(III) was confirmed in freshly generated mainstream smoke. Potential areas for future research are highlighted in order to further our understanding of the speciation mechanism for arsenic in tobacco products.
Journal Article