Reproducible Analysis Research Articles

Multi‐Parametric Decision System for Analytical Performance Assessment of Electrochemical (Bio)Sensors

AbstractMiniaturized three‐electrode electrochemical sensors (MES) are widely used in the advancement of innovative technologies for remote sensing applications. MESs consist of conductive electrodes that are applied onto an inert solid substrate using various techniques, such as photolithography, electroplating, and screen printing. Typical MES systems comprise working (WE) and counter (CE) electrodes based on gold (Au), paired with a reference electrode (RE) based on silver (Ag). This configuration is commonly selected due to Au's high conductivity, low resistance, and compatibility with robust organothiol chemistries, especially for the WE. Moreover, Ag is often preferred for REs owing to its low toxicity, stability, and high conductivity. Nevertheless, in uncontrolled environments outside of cleanrooms, both Au and Ag surfaces are prone to atmospheric contamination, resulting in significant sensor variability and compromised analytical performance. Therefore, it is crucial to integrate a pre‐processing stage into the sensor manufacturing process to guarantee the quality and cleanliness of MES electrode surfaces for sensor functionalization and precise electrochemical measurements. Considering the potential negative effects of methods tailored for a specific electrode material on another material, this study extensively investigates 18 different treatment methods for MESs incorporating Au CEs and WEs, along with Ag REs. Employing a multi‐parametric analysis, this study aims to identify the most effective treatment for a variety of electrode materials, thereby improving analytical accuracy and reproducibility for subsequent MES (bio)sensor applications.

Stereoselective Amine-omics Using Heavy Atom Isotope Labeled l-and d-Marfey's Reagents.

Biological amines and amino acids play essential roles in many biochemical processes. The chemical complexity of biological samples is challenging, and the selective identification and quantification of amines and amino acid stereoisomers would be very useful for amine-focused "amino-omics" studies. Many amines and amino acids are chiral, and their stereoisomers cannot be resolved on achiral media without chiral derivatization. In prior studies, we demonstrated the use of Marfey's reagent─a chiral derivatization reagent for amines and phenolic OH groups─for the LC-MS/MS resolution and quantification of amines and amino acid stereoisomers. In this study, a heavy atom isotope labeled Marfey's reagent approach for the stereoselective detection and quantification of amines and amino acids was developed. Heavy (13C2) l-Marfey's (Hl-Mar) and heavy (2H3) d-Marfey's (Hd-Mar) were synthesized from 13C2-l-Ala and 2H3-d-Ala, respectively. Both light and heavy Marfey's reagents were used to derivatize standard amine mixtures, which were analyzed by LC-QToF-HRMS. Aligned peak lists were comparatively analyzed by light vs heavy Mar mass differences to identify mono-, di-, and tri-Marfey's adducts and then by the retention time difference between l- and d-Mar derivatives to identify stereoisomers. This approach was then applied to identify achiral and chiral amine and amino acid components in a methicillin-resistant Staphylococcus aureus (MRSA) extract. This approach shows high analytical selectivity and reproducibility.

A Systematic Review of Dust Suppression Methods by Experiment Based on Intelligent Technology in the Coal Mines

The mining and its transportation processes generate a substantial quantity of dust, which harms miners' health. The extended inhalation of dust particles could result in pneumoconiosis. There are numerous studies on coal mine dust removal, but only a handful of articles critically comment on it. A systematic coal mine dedusting literature review has been conducted to attempt a comprehensive and reproducible analysis. This article reviews dust suppression methods by experiment in coal mines from three aspects: chemical modification of dust removers, structural improvement of dust removers, and other factors. The review showed that independent experimental research suits dust remover's structural improvement and chemical modification. Compared to non-phytochemical modifications, phytochemical modifications are more efficient and environmentally friendly. The development of dust remover structures concentrates primarily on the nozzle structure, nozzle diameter, the number of holes, and the distance, with the nozzle diameter being of particular significance. Sometimes, tweaking the nozzle structure does not yield significant efficiency improvements. However, supersonic nozzles demonstrate high efficiency and are likely to be a key area of future research. Experiments also investigated other factors' effects on coal mines' dust removal efficacy, including ventilation system, metamorphic degree of coal, and particle diameter. This review provides the latest dust removal technology information for coal mines. Intelligent technology provides the basis for experimental research on dust removal in coal mines. The future trends of experimental research in the coal mine dust control field include intelligent and automated dust control systems, comprehensive control of multiple pollutants, application of new materials and technologies, and interdisciplinary collaboration and cross-disciplinary research.

Kinetic analysis and dosimetric characteristics of the thermoluminescent glow curve of aquamarine (Be3Al2(SiO3)6:Fe)

Kinetic analysis of the thermoluminescent (TL) glow curve of aquamarine, a cyan variety of beryl (Be3Al2(SiO3)6), is reported. Samples were irradiated at room temperature using a90Sr/90Y β source at a rate of 0.10 Gy-1. Measurements made at 1 °C/s after irradiation from 1 to 100 Gy show a high intensity peak at 75 °C followed by three secondary peaks at 115, 189 and 302 °C respectively. The dose response of the high intensity peak (called the main peak) is linear within the first 20 Gy, but tends towards sub-linearity as the dose is close to 100 Gy. The signal decays with the time delay between irradiation and reading. It decays about 14% of its initial value, 600 s after irradiation. Reproducibility analysis shows that the material reproduces its response under identical experimental conditions with an uncertainty of 0.8% after 10 Gy beta dose irradiation. The kinetic analysis of the TL glow curve was carried out using the curve fitting method. The results show that the main peak follows first order kinetics, its activation energy is of the order of 1 eV and the frequency factor is between 1012 and 1014 s−1, while some secondary peaks follow general order kinetics.

Stability of radiomic features from positron emission tomography images: a phantom study comparing advanced reconstruction algorithms and ordered subset expectation maximization.

In this study, we compared the repeatability and reproducibility of radiomic features obtained from positron emission tomography (PET) images according to the reconstruction algorithm used-advanced reconstruction algorithms, such as HYPER iterative (IT), HYPER deep learning reconstruction (DLR), and HYPER deep progressive reconstruction (DPR), or traditional Ordered Subset Expectation Maximization (OSEM)-to understand the potential variations and implications of using advanced reconstruction techniques in PET-based radiomics. We used a heterogeneous phantom with acrylic spherical beads (4- or 8-mm diameter) filled with 18F. PET images were acquired and reconstructed using OSEM, IT, DLR, and DPR. Original and wavelet radiomic features were calculated using SlicerRadiomics. Radiomic feature repeatability was assessed using the Coefficient of Variance (COV) and intraclass correlation coefficient (ICC), and inter-acquisition time reproducibility was assessed using the concordance correlation coefficient (CCC). For the 4- and 8-mm diameter beads phantom, the proportion of radiomic features with a COV < 10% was equivocal or higher for the advanced reconstruction algorithm than for OSEM. ICC indicated that advanced methods generally outperformed OSEM in repeatability, except for the original features of the 8-mm beads phantom. In the inter-acquisition time reproducibility analysis, the combinations of 3 and 5min exhibited the highest reproducibility in both phantoms, with IT and DPR showing the highest proportion of radiomic features with CCC > 0.8. Advanced reconstruction methods provided enhanced stability of radiomic features compared with OSEM, suggesting their potential for optimal image reconstruction in PET-based radiomics, offering potential benefits in clinical diagnostics and prognostics.

On variance estimation of the inverse probability-of-treatment weighting estimator: A tutorial for different types of propensity score weights.

Propensity score methods, such as inverse probability-of-treatment weighting (IPTW), have been increasingly used for covariate balancing in both observational studies and randomized trials, allowing the control of both systematic and chance imbalances. Approaches using IPTW are based on two steps: (i) estimation of the individual propensity scores (PS), and (ii) estimation of the treatment effect by applying PS weights. Thus, a variance estimator that accounts for both steps is crucial for correct inference. Using a variance estimator which ignores the first step leads to overestimated variance when the estimand is the average treatment effect (ATE), and to under or overestimated estimates when targeting the average treatment effect on the treated (ATT). In this article, we emphasize the importance of using an IPTW variance estimator that correctly considers the uncertainty in PS estimation. We present a comprehensive tutorial to obtain unbiased variance estimates, by proposing and applying a unifying formula for different types of PS weights (ATE, ATT, matching and overlap weights). This can be derived either via the linearization approach or M-estimation. Extensive R code is provided along with the corresponding large-sample theory. We perform simulation studies to illustrate the behavior of the estimators under different treatment and outcome prevalences and demonstrate appropriate behavior of the analytical variance estimator. We also use a reproducible analysis of observational lung cancer data as an illustrative example, estimating the effect of receiving a PET-CT scan on the receipt of surgery.

The mesenteric entry site as a potential weak point in gastrointestinal anastomoses – findings from an ex-vivo biomechanical analysis

PurposeGastrointestinal disorders frequently necessitate surgery involving intestinal resection and anastomosis formation, potentially leading to severe complications like anastomotic leakage (AL) which is associated with increased morbidity, mortality, and adverse oncologic outcomes. While extensive research has explored the biology of anastomotic healing, there is limited understanding of the biomechanical properties of gastrointestinal anastomoses, which was aimed to be unraveled in this study.MethodsAn ex-vivo model was developed for the biomechanical analysis of 32 handsewn porcine end-to-end anastomoses, using interrupted and continuous suture techniques subjected to different flow models. While multiple cameras captured different angles of the anastomosis, comprehensive data recording of pressure, time, and temperature was performed simultaneously. Special focus was laid on monitoring time, location and pressure of anastomotic leakage (LP) and bursting pressures (BP) depending on suture techniques and flow models.ResultsSignificant differences in LP, BP, and time intervals were observed based on the flow model but not on the suture techniques applied. Interestingly, anastomoses at the insertion site of the mesentery exhibited significantly higher rates of leakage and bursting compared to other sections of the anastomosis.ConclusionThe developed ex-vivo model facilitated comparable, reproducible, and user-independent biomechanical analyses. Assessing biomechanical properties of anastomoses offers an advantage in identifying technical weak points to refine surgical techniques, potentially reducing complications like AL. The results indicate that mesenteric insertion serves as a potential weak spot for AL, warranting further investigations and refinements in surgical techniques to optimize outcomes in this critical area of anastomotic procedures.

μ-Raman spectroscopy as a useful tool for improving knowledge of ancient ceramic manufacturing technologies

In recent decades, μ-Raman spectroscopy has become a powerful technique for studying ceramics, with the advantage of performing fast, reproducible and reliable analyses that provide effective information on ceramic technology. In the present paper, the potential of μ-Raman spectroscopy was evaluated by comparing the results of spectroscopic analyses with a wide range of conventional compositional and mineralogical analyses. Particular fragments of pottery from the archaeological site of Pollena Trocchia (Campania, Italy), characterized by a variegated color zonation, a symptom of uncontrolled firing conditions, were subjected to in-depth analytical investigation. Data from the μ-Raman measurements were in very good agreement with the analytical set of conventional analyses and permitted to better constrain the firing temperatures, evaluate changes in the oxidative steps, and assert the provenance of volcanic raw materials. The results illuminated that pottery was crafted by mixing a low-CaO base clay with volcanic temper from the environs of Vesuvius and fired in a not well-controlled firing atmosphere, which determined the development of Fe(III) oxides at rims of sherds and Fe(II)-bearing phases at cores. Moreover, even in the absence of newly-formed minerals, firing temperatures were estimated between 900 and 950 °C, as suggested by the mineralogical and spectroscopic evidence of the prograde 10 Å dehydroxylated phyllosilicates.

Automatic analysis of pottery sherds based on structure from motion scanning: The case of the Phoenician carinated-shoulder amphorae from Tell el-Burak (Lebanon)

Over the last few years, significant interest has been addressed in developing computer-based methods to document and analyze fragments of ceramics sherds in archaeology. This is because traditional manual processes do not allow for an objective, repeatable, and reproducible analysis of the large quantities of material needed to fully understand and explain human practices in various cultural contexts, such as the economy, daily life, and the material expression of religious beliefs.In that context, this paper proposes a fully digital methodology resulting from the constitution of an international research group coming from different scientific backgrounds: archaeologists with specific skills and experience in fast 3D geometry acquisition methods and researchers who developed and published the only available computer-based process for recognizing the geometric and morphological sherds features analyzed by archaeologists. The proposed methodology consists of two main parts: 1. 3D acquisition of sherds with the construction of the discrete 3D manifold model based on the Structure for Motion technologies; 2. recognition, segmentation, and dimensional characterization of morphological and geometrical features based on the codification and algorithmic implementation of the knowledge used by the archeologists in the traditional method. The method was applied to analyze a set of 133 sherds excavated at Tell el-Burak (Lebanon) to obtain, through the analysis of the namely Phoenician carinated-shoulder amphorae, new insights into the economic organization of the Phoenician homeland. The method demonstrated the potential for objectively, repeatedly, and reproducibly analyzing large quantities of sherds. Furthermore, it allowed studying sherds by generating new high-level knowledge from those acquired from 3D models; in particular, this paper introduces new morphological features that help the archaeologist classify fragments from an analysis of the rim's shape.

Environmental dosimetry in northwest Patagonia using LiF:Mg,Cu,P: Analysis of reproducibility, sensitivity, and fading changes over time

Abstract The environmental radiation dose depends on many factors, which have to be taken into account when monitoring programs are implemented. The aim of this study was to analyze the fading, reproducibility, and sensitivity changes over time in LiF:Mg,Cu,P dosimeters used in the environmental radiation monitoring program at Bariloche Atomic Centre, Argentina. The environmental monitoring has been carried out since 2011, and the dosimeters readout was performed on a 2-month and on a 6-month basis monitoring period. The results were analyzed by applying descriptive statistics based on the coefficients of variation, the average, and the standard deviation of the measurements carried out. From the results of this study, the reproducibility and sensitivity of the dosimeters are clearly affected as the time goes by. It is evident that a better reproducibility can be achieved by carefully selecting the individual dosimeters or using the individual sensitivity factors associated with each dosimeter. The results have also shown no evidence to apply a fading correction factor when the monitoring period is shorter than 2 months. Nevertheless, the thermoluminescent signal should be increased a 10% when the monitoring is based on a 6-month period. The use of thermoluminescent dosimeters in the environment monitoring programs proved to be appropriate and useful when taken account of the changes in the reproducibility, sensitivity, and fading response over time.

Biomarkers for Pre-Treatment Risk Stratification of Prostate Cancer Patients: A Systematic Review.

Prostate cancer (PCa) is one of the most frequently occurring malignancies. Although most cases are not life-threatening, approximately 20% endure an unfavorable outcome. PSA-based screening reduced mortality but at the cost of an increased overdiagnosis/overtreatment of low-risk (lrPCa) and favorable intermediate-risk (firPCa) PCa. PCa risk-groups are usually identified based on serum Prostate-Specific Antigen (PSA), the Gleason score, and clinical T stage, which have consistent although variable specificity or subjectivity. Thus, more effective and specific tools for risk assessment are needed, ideally making use of minimally invasive methods such as liquid biopsies. In this systematic review we assessed the clinical potential and analytical performance of liquid biopsy-based biomarkers for pre-treatment risk stratification of PCa patients. Studies that assessed PCa pre-treatment risk were retrieved from PubMed, Scopus, and MedLine. PCa risk biomarkers were analyzed, and the studies' quality was assessed using the QUADAS-2 tool. The final analysis comprised 24 full-text articles, in which case-control studies predominated, mostly reporting urine-based biomarkers (54.2%) and biomarker quantification by qPCR (41.7%). Categorization into risk groups was heterogeneous, predominantly making use of the Gleason score. This systematic review unveils the substantial clinical promise of using circulating biomarkers in assessing the risk for prostate cancer patients. However, the standardization of groups, categories, and biomarker validation are mandatory before this technique can be implemented. Circulating biomarkers might represent a viable alternative to currently available tools, obviating the need for tissue biopsies, and allowing for faster and more cost-effective testing, with superior analytical performance, specificity, and reproducibility.

Guidelines for reproducible analysis of adaptive immune receptor repertoire sequencing data.

Enhancing the reproducibility and comprehension of adaptive immune receptor repertoire sequencing (AIRR-seq) data analysis is critical for scientific progress. This study presents guidelines for reproducible AIRR-seq data analysis, and a collection of ready-to-use pipelines with comprehensive documentation. To this end, ten common pipelines were implemented using ViaFoundry, a user-friendly interface for pipeline management and automation. This is accompanied by versioned containers, documentation and archiving capabilities. The automation of pre-processing analysis steps and the ability to modify pipeline parameters according to specific research needs are emphasized. AIRR-seq data analysis is highly sensitive to varying parameters and setups; using the guidelines presented here, the ability to reproduce previously published results is demonstrated. This work promotes transparency, reproducibility, and collaboration in AIRR-seq data analysis, serving as a model for handling and documenting bioinformatics pipelines in other research domains.

Lab-made screen-printed electrode with conductive ink based on carbon nanomaterials for simultaneous electrochemical analysis of bisphenol A, catechol, and 4-nitrophenol

Disposable, flexible, and low-cost, lab-made screen-printed electrodes (SPEs) using conductive inks based on carbon nanomaterials were applied to determine environmental pollutants in water. Several compositions of carbon conductive inks were investigated, and the best one was composed of nanographite, graphene nanoplatelets, and alkyd resin (40:10:50%, w/w/w). Under optimized conditions using square wave voltammetry, calibration curves were constructed (individually and simultaneously) for detection of bisphenol A (BPA), catechol (CC), and 4-nitrophenol (4-NP), presented linear responses in the 2.5 to 200 µmol L–1 range. From the individual curves, the LODs obtained for BPA, CC, and 4-NP were 1.7, 6.9, and 2.8 µmol L–1, respectively. The proposed sensors were chemically and microscopically characterized and evaluated for their analytical performance, including stability (over 70 days, with RSD < 10%), reproducibility (RSD < 10% for 10 SPEs), possible interferences (relative error < 12%), and hazardous phenolic pollutants on-site analysis in water samples (RE < 10%).

Ultradense Electrochemical Chips with Arrays of Nanostructured Microelectrodes to Enable Sensitive Diffusion-Limited Bioassays.

Nanostructured microelectrodes (NMEs) are an attractive alternative to yield sensitive bioassays in unprocessed samples. However, although valuable for different applications, nanoporous NMEs usually cannot boost the sensitivity of diffusion-limited analyses because of the enlarged Debye length within the nanopores, which reduces their accessibility. To circumvent this limitation, nanopore-free gold NMEs were electrodeposited from 45 μm SU-8 apertures, featuring nanoridged microspikes on a recessed surface of gold thin film while carrying interconnected crown-like and spiky structures along the edge of a SU-8 passivation layer. These structures were grown onto ultradense, vertical array chips that offer a promising strategy for translating reproducible, high-resolution, and cost-effective sensors into real-world applications. The NMEs yielded reproducible analyses, while machine learning allowed us to predict the analytical responses from NME electrodeposition data. By taking advantage of the high surface area and accessible structure of the NMEs, these structures provided a sensitivity for [Fe(CN)6]3-/4- that was 5.5× higher than that of bare WEs while also delivering a moderate antibiofouling property in undiluted human plasma. As a proof of concept, these electrodes were applied toward the fast (22 min) and simple determination of Staphylococcus aureus by monitoring the oxidation of [Fe(CN)6]4-, which acted as a cellular respiration rate redox reporter. The sensors also showed a wide dynamic range, spanning 5 orders of magnitude, and a calculated limit of detection of 0.2 CFU mL-1.

Abstract 3671: Analytical performance of the Oncomine™ Dx Express Test, a CE-IVD NGS liquid biopsy assay for identification of clinically relevant variants

Abstract For in vitro Diagnostic use only. Not available in all regions including the United States. Introduction Minimally invasive blood-based liquid biopsy using cell-free total nucleic acid (cfTNA) and next generation sequencing (NGS) has substantially evolved in the field of clinical diagnostics for oncology, for detection of molecular therapeutic targets in non-small cell lung cancer (NSCLC). Here we describe analytical validation results for cfTNA using the CE-IVD Oncomine™ Dx Express Test (ODxET) assay, a qualitative in vitro diagnostic test that uses targeted NGS technology, the Ion Torrent Genexus™ Dx Integrated Sequencer to detect SNV, indel and copy number gain present in 42 genes and fusions in 7 genes from cfTNA isolated from NSCLC plasma samples. Methods Plasma samples from NSCLC patients were screened for variants of interest on several important gene loci. Screening involved isolation of cfTNA from K2-EDTA-derived plasma using the Genexus™ Cell-Free Total Nucleic Acid Purification kit on an automated purification system and sequencing was performed on the Genexus™ Dx integrated sequencer using the ODxET assay. Plasma samples having clinically relevant variants from the set of screened plasma samples were used to perform the validation studies. Results Analytical sensitivity and specificity of NSCLC plasma samples were characterized through determination of limit of detection (LOD) and limit of blank (LOB), respectively. The LOD level tested for DNA SNVs, and indels at 5 ng (minimum) input level ranged from 0.62% to 1.82% allelic frequency (AF), while 30 ng (maximum) input shows the LOD level ranging from 0.23% to 0.42% AF. The LOD for the tested RNA fusions ranged from 4.2 to 19.6 molecular counts for 5ng input and 4.9 to 8.0 molecular counts for 30ng input. Furthermore, LOB for the ODxET assay was determined by testing wild type (WT) cfTNA extracted from 30 healthy donor blood plasma samples, which were confirmed to be negative at all variant locations. The analytical accuracy study shows the false positive rate at 0.20% for SNVs, 0% for indel locations and fusion targets. In addition, the analytical reproducibility study shows 99.64% intra-run repeatability call rate for DNA variants and 98.75% for RNA variants. Conclusion In conclusion, we establish that the ODxET assay on Ion Torrent Genexus Dx Integrated Sequencer, is fast and efficient while demonstrating high sensitivity, specificity, and reproducibility for testing NSCLC liquid biopsy samples. Citation Format: Madhuri Jasti, Swasti Raut, Diarra Hassell, Nader Ezzedine, Daniela Garcia, Stephen Wunsch, Nick Siepert, Elliott Martinez, Emilia Ostrowska, Jeff Schagemann, Jian Gu, Thilanka Jayaweera, Luming He, Angie Cheng. Analytical performance of the Oncomine™ Dx Express Test, a CE-IVD NGS liquid biopsy assay for identification of clinically relevant variants [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2024; Part 1 (Regular Abstracts); 2024 Apr 5-10; San Diego, CA. Philadelphia (PA): AACR; Cancer Res 2024;84(6_Suppl):Abstract nr 3671.

The eDNA-Container App: A Simple-to-Use Cross-Platform Package for the Reproducible Analysis of eDNA Sequencing Data

The analysis of environmental DNA (eDNA) is a powerful and non-invasive method for monitoring the presence of species in ecosystems. However, ecologists and laboratory staff can find it challenging to use eDNA analysis software effectively due to the unfamiliar command-line interfaces used by many of these packages. Therefore, we developed the eDNA-container app, a free and open-source software package that provides a simple user-friendly interface for eDNA analysis. The application is based on the popular QIIME2 library and is distributed as a Docker image. The use of Docker makes it compatible with a wide range of operating systems and facilitates the reproducible analysis of data across different laboratories. The application includes a point-and-click user interface for selecting sequencing files, configuring parameters, and accessing the results. Key pipeline outputs, such as sequence quality plots, denoising, and ASV generation statistics, are automatically included in a PDF report. This open-source and freely available analysis package should be a valuable tool for scientists using eDNA in biodiversity and biosecurity applications.

Reproducibility of arterial spin labeling cerebral blood flow image processing: A report of the ISMRM open science initiative for perfusion imaging (OSIPI) and the ASL MRI challenge.

Arterial spin labeling (ASL) is a widely used contrast-free MRI method for assessing cerebral blood flow (CBF). Despite the generally adopted ASL acquisition guidelines, there is still wide variability in ASL analysis. We explored this variability through the ISMRM-OSIPI ASL-MRI Challenge, aiming to establish best practices for more reproducible ASL analysis. Eight teams analyzed the challenge data, which included a high-resolution T1-weighted anatomical image and 10 pseudo-continuous ASL datasets simulated using a digital reference object to generate ground-truth CBF values in normal and pathological states. We compared the accuracy of CBF quantification from each team's analysis to the ground truth across all voxels and within predefined brain regions. Reproducibility of CBF across analysis pipelines was assessed using the intra-class correlation coefficient (ICC), limits of agreement (LOA), and replicability of generating similar CBF estimates from different processing approaches. Absolute errors in CBF estimates compared to ground-truth synthetic data ranged from 18.36 to 48.12 mL/100 g/min. Realistic motion incorporated into three datasets produced the largest absolute error and variability between teams, with the least agreement (ICC and LOA) with ground-truth results. Fifty percent of the submissions were replicated, and one produced three times larger CBF errors (46.59 mL/100 g/min) compared to submitted results. Variability in CBF measurements, influenced by differences in image processing, especially to compensate for motion, highlights the significance of standardizing ASL analysis workflows. We provide a recommendation for ASL processing based on top-performing approaches as a step toward ASL standardization.

Evaluation of next-generation sequencing versus next-generation flow cytometry for minimal-residual-disease detection in Chinese patients with multiple myeloma

PurposeTo evaluate the efficacy of next-generation sequencing (NGS) in minimal-residual-disease (MRD) monitoring in Chinese patients with multiple myeloma (MM).MethodsThis study analyzed 60 Chinese MM patients. During MRD monitoring in these patients’ post-therapy, clonal immunoglobulin heavy chain (IGH) rearrangements were detected via NGS using LymphoTrack assays. MRD monitoring was performed using NGS or next-generation flow cytometry (NGF), and the results were compared. Additionally, the sensitivity and reproducibility of the NGS method were assessed.ResultsThe MRD detection range of the NGS method was 10–6–10–1, which suggested good linearity, with a Pearson correlation coefficient of 0.985 and a limit of detection of 10–6. Intra- and inter-assay reproducibility analyses showed that NGS exhibited 100% reproducibility with low variability in clonal cells. At diagnosis, unique clones were found in 42 patients (70.0%) with clonal IGH rearrangements, which were used as clonality markers for MRD monitoring post-therapy. Comparison of NGS and NGF for MRD monitoring showed 79.1% concordance. No samples that tested MRD-positive via NGF were found negative via NGS, indicating the higher sensitivity of NGS. MRD could be detected using NGS in 6 of 7 samples before autologous hematopoietic stem-cell transplantation, and 5 of them tested negative post-transplantation. In contrast, the NGF method could detect MRD in only 1 sample pre-transplantation.ConclusionCompared with NGF, NGS exhibits higher sensitivity and reproducibility in MRD detection and can be an effective strategy for MRD monitoring in Chinese MM patients.

A Feasibility Test of the Disposable Drug Daughter Plate Combined with 384‐Pillar Plate for Patient‐Derived Organoid‐Based High Throughput Screening

AbstractA disposable daughter plate is developed for robotic organoid‐based high‐throughput screening (HTS). Previously, daughter drug plates are prepared using mother drug plates in conventional HTS. During each screening, the mother drug plate is thawed, a certain amount of the drug is transferred to the daughter plate, and frozen again. Drug manufacturing involves drug transfer processes that may result in drug damage owing to redissolution. Thus, disposable daughter plates are created by dispensing small drug spots into the well plates and freezing them. The cells at the Matrigel dorms of the pillar plate are easily exposed to the drugs by immersing the pillars. Unlike previously reported similar methods, it is verified that HTS‐based drug response analysis is possible by applying the proposed disposable daughter plate to breast cancer patient‐derived organoids (PDOs). And it is also verified the long‐term stability of disposable daughter plates (up to 3 months) in 3D cell culture system using patient‐derived cells (PDO). The drug response results are quantified using normalized area under curve values, while the experimental reproducibility of the disposable daughter plates is evaluated using the coefficient of variation and a simple linear regression test. Thus, the proposed disposable daughter plate allows reproducible drug efficacy analysis.

Performance and reproducibility analysis of zinc sulfo-selenide and cuprous oxide based perovskite solar cell: A SCAPS study

The combination of titanium dioxide (TiO2) as electron transport layer (ETL) and 2,2’,7,7’-Tetrakis [N,N-di(4-methoxyphenyl)amino]−9,9’-spirobifluorene (Spiro-OMeTAD) as hole transport layer (HTL) have been frequently used in solution-processed perovskite solar cells (PSCs). However, the high sintering temperature required during the deposition of TiO2 layer and expensive Spiro-OMeTAD are limiting its commercial applicability. In this context, the combination of zinc sulfo-selenide (ZnS0.5Se0.5) (as ETL) which can be spray coated and inexpensive cuprous oxide (Cu2O) (as HTL) can serve as an alternative. This report computationally explores and compares the utility of the combination of ZnS0.5Se0.5 and Cu2O against that of TiO2 and Spiro-OMeTAD in terms of performance and reproducibility of MAPbI3 based PSC. The performance of optimized baseline models is quantitatively compared in terms of the values of performance metrics. Also, their performance is compared with respect to variations in bulk/interfacial defect density using the electrical and impedance spectroscopy characterizations. Further, their reproducibility is compared under variable carrier mobility of absorber layer. The optimized champion and mean power conversion efficiency of ZnS0.5Se0.5/Cu2O based cell are 25.6% and 25.3% respectively with standard deviation of 0.73% which is quite impressive and realistic when compared to the existing literature. The results obtained are quantitatively explained based on correlation between the cumulative effect of transit and recombination resistances evaluated using Nyquist profiles. The report systematically addresses the importance of ETL and HTL combination towards improving the performance and reproducibility of solution-processed PSCs.