A review of pooled‐sample strategy: Does complexity lead to better performance?

Song, Yu; Wang, XueLiang; Xiao, Yanqun; Wang, Hualiang

doi:10.1002/viw.20210005

Cited by 3 publications

(1 citation statement)

References 39 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…RT-qPCR has remained the cornerstone for diagnosing COVID-19, with a vast array of innovative approaches emerging during the outbreak. Notably, the use of pooled testing strategies along with the implementation of suitable algorithms have increased the testing power without increasing resource requirements (Ivan et al, 2021 ; Song et al, 2022 ). Improvements in ergonomics are exemplified by the Istanbul airport, with a per day capacity of 20,000 tests and a rapid 1-h turnaround time (Istanbul-Airport).…”

Section: Introductionmentioning

confidence: 99%

Rapid inactivation and sample preparation for SARS-CoV-2 PCR-based diagnostics using TNA-Cifer Reagent E

Pollak,

Rawle,

Yan

et al. 2023

Front. Microbiol.

View full text Add to dashboard Cite

RT-qPCR remains a key diagnostic methodology for COVID-19/SARS-CoV-2. Typically, nasal or saliva swabs from patients are placed in virus transport media (VTM), RNA is extracted at the pathology laboratory, and viral RNA is measured using RT-qPCR. In this study, we describe the use of TNA-Cifer Reagent E in a pre-clinical evaluation study to inactivate SARS-CoV-2 as well as prepare samples for RT-qPCR. Adding 1 part TNA-Cifer Reagent E to 5 parts medium containing SARS-CoV-2 for 10 min at room temperature inactivated the virus and permitted RT-qPCR detection. TNA-Cifer Reagent E was compared with established column-based RNA extraction and purification methodology using a panel of human clinical nasal swab samples (n = 61), with TNA-Cifer Reagent E showing high specificity (100%) and sensitivity (97.37%). Mixtures of SARS-CoV-2 virus and TNA-Cifer Reagent E could be stored for 3 days at room temperature or for 2 weeks at 4°C without the loss of RT-qPCR detection sensitivity. The detection sensitivity was preserved when TNA-Cifer Reagent E was used in conjunction with a range of VTM for saliva samples but only PBS (Gibco) and Amies Orange for nasal samples. Thus, TNA-Cifer Reagent E improves safety by rapidly inactivating the virus during sample processing, potentially providing a safe means for molecular SARS-CoV-2 testing outside traditional laboratory settings. The reagent also eliminates the need for column-based and/or automated viral RNA extraction/purification processes, thereby providing cost savings for equipment and reagents, as well as reducing processing and handling times.

show abstract

Section: Introductionmentioning

confidence: 99%

Rapid inactivation and sample preparation for SARS-CoV-2 PCR-based diagnostics using TNA-Cifer Reagent E

Pollak,

Rawle,

Yan

et al. 2023

Front. Microbiol.

View full text Add to dashboard Cite

show abstract

Multidimensional Proteomic Landscape Reveals Distinct Activated Pathways Between Human Brain Tumors

Yang,

Zheng,

Zhou

et al. 2024

Advanced Science

View full text Add to dashboard Cite

Brain metastases (BrMs) and gliomas are two typical human brain tumors with high incidence of mortalities and distinct clinical challenges, yet the understanding of these two types of tumors remains incomplete. Here, a multidimensional proteomic landscape of BrMs and gliomas to infer tumor‐specific molecular pathophysiology at both tissue and plasma levels is presented. Tissue sample analysis reveals both shared and distinct characteristics of brain tumors, highlighting significant disparities between BrMs and gliomas with differentially activated upstream pathways of the PI3K‐Akt signaling pathway that have been scarcely discussed previously. Novel proteins and phosphosites such as NSUN2, TM9SF3, and PRKCG_S330 are also detected, exhibiting a high correlation with reported clinical traits, which may serve as potential immunohistochemistry (IHC) biomarkers. Moreover, tumor‐specific altered phosphosites and glycosites on FN1 are highlighted as potential therapeutic targets. Further validation of 110 potential noninvasive biomarkers yields three biomarker panels comprising a total of 19 biomarkers (including DES, VWF, and COL1A1) for accurate discrimination of two types of brain tumors and normal controls. In summary, this is a full‐scale dataset of two typical human brain tumors, which serves as a valuable resource for advancing precision medicine in cancer patients through targeted therapy and immunotherapy.

show abstract

Integrating Machine Learning in Metabolomics: A Path to Enhanced Diagnostics and Data Interpretation

Xu,

Cao,

Chen

et al. 2024

Small Methods

View full text Add to dashboard Cite

Metabolomics, leveraging techniques like NMR and MS, is crucial for understanding biochemical processes in pathophysiological states. This field, however, faces challenges in metabolite sensitivity, data complexity, and omics data integration. Recent machine learning advancements have enhanced data analysis and disease classification in metabolomics. This study explores machine learning integration with metabolomics to improve metabolite identification, data efficiency, and diagnostic methods. Using deep learning and traditional machine learning, it presents advancements in metabolic data analysis, including novel algorithms for accurate peak identification, robust disease classification from metabolic profiles, and improved metabolite annotation. It also highlights multiomics integration, demonstrating machine learning's potential in elucidating biological phenomena and advancing disease diagnostics. This work contributes significantly to metabolomics by merging it with machine learning, offering innovative solutions to analytical challenges and setting new standards for omics data analysis.

show abstract

A review of pooled‐sample strategy: Does complexity lead to better performance?

Cited by 3 publications

References 39 publications

Rapid inactivation and sample preparation for SARS-CoV-2 PCR-based diagnostics using TNA-Cifer Reagent E

Rapid inactivation and sample preparation for SARS-CoV-2 PCR-based diagnostics using TNA-Cifer Reagent E

Multidimensional Proteomic Landscape Reveals Distinct Activated Pathways Between Human Brain Tumors

Integrating Machine Learning in Metabolomics: A Path to Enhanced Diagnostics and Data Interpretation

Contact Info

Product

Resources

About