bluuebunny/crossref_metadata_2025_split huggingface dataset:
Quantification of parasite clearance in Plasmodium knowlesi infections
Authors: Rathnam Jeyamalar T Thurai , Grigg Matthew J , Dini Saber , William Timothy , Sakam Sitti Saimah binti , Cooper Daniel J , Rajahram Giri S , Barber Bridget E , Anstey Nicholas M , Haghiri Ali , Rajasekhar Megha , Simpson Julie A 
Published: December 2022

Abstract
Background
The incidence of zoonotic Plasmodium knowlesi infections in humans is rising in Southeast Asia, leading to clinical studies to monitor the efficacy of antimalarial treatments for knowlesi malaria. One of the key outcomes of antimalarial drug efficacy is parasite clearance. For P. falciparum, parasite clearance is typically estimated using a two-stage method, that involves estimating parasite clearance for individual patients followed by pooling of individual estimates to derive population estimates. An alternative approach is Bayesian hierarchical modelling which simultaneously analyses all parasite-time patient profiles to determine parasite clearance. This study compared these methods for estimating parasite clearance in P. knowlesi treatment efficacy studies, with typically fewer parasite measurements per patient due to high susceptibility to antimalarials.
Methods
Using parasite clearance data from 714 patients with knowlesi malaria and enrolled in three trials, we compared the Worldwide Antimalarial Resistance Network (WWARN) Parasite Clearance Estimator (PCE) standard two-stage approach and Bayesian hierarchical modelling. Both methods estimate the parasite clearance rate from a model that incorporates a lag phase, slope, and tail phase for the parasitaemia profiles.
Results
The standard two-stage approach successfully estimated the parasite clearance rate for 678 patients, with 36 (5%) patients excluded due to an insufficient number of available parasitaemia measurements. The Bayesian hierarchical estimation method was applied to the parasitaemia data of all 714 patients. Overall, the Bayesian method estimated a faster population mean parasite clearance (0.36/hour, 95% credible interval [0.1759, 0.6524]) compared to the standard two-stage method (0.26/hour, 95% confidence interval [0.1093, 0.4596]), with better model fits (compared visually). The artemisinin-based combination therapies were more effective in treating P. knowlesi than chloroquine, as determined by both methods, with a mean estimated parasite clearance half-life of 2.5 and 3.6 hours respectively using the standard two-stage method, and 1.8 and 2.9 hours using the Bayesian method.
Conclusion
For clinical studies of P. knowlesi with frequent parasite measurements, we recommend the standard two-stage approach (WWARN’s PCE) as this method is straightforward to implement. For studies with fewer parasite measurements per patient, the Bayesian approach should be considered. Regardless of method used, artemisinin combination therapies are more efficacious than chloroquine.
Mg modified nanobiochar from spent coffee grounds: Evaluation of the phosphate removal efficiency and its application as a phosphorous release fertilizer
Authors: Sisay Gemeda Begna , Mekonnen Menbere Leul 
Published: December 2022

Abstract
Phosphate enrichment of the aquatic system often impacts their aesthetic and ecological values. Hence, phosphate recovery is essential to maintain the quality of aquatic systems and ensure sustainable use of phosphorous. Herein, Mg-modified nanobiochar from spent coffee grounds (Mg/NBC) is proposed as an efficient adsorbent for phosphate recovery, and as a phosphorous-release fertilizer. The nanobiochar was obtained by acid digestion of the biochar resulting from pyrolysis. The effect of parameters viz pH, contact time, the dose of adsorbent, and initial concentration on the adsorption was investigated in batch experiments. Results indicated that phosphate adsorption on Mg/NBC is favored in acidic conditions with maximum adsorption (95%) at pH 1. Mg/NBC showed a 12.84% improvement in the adsorption efficiency than the pristine nanobiochar. Characterizations of the adsorbent before and after adsorption suggested that phosphate is involved in both physisorption and chemisorption. Adsorption of phosphate followed pseudo-second-order kinetics with an equilibrium constant (K2) of 0.029 g/mg.min. The Langmuir adsorption isotherm model is better fitted to the equilibrium data with a maximum adsorption capacity of 100 mg/g suggesting uniform monolayer adsorption. Results of the pot test showed that phosphate-laden Mg/NBC improved the growth of garlic and beans by 10 and 5% respectively. The result highlights the utility of phosphate-laden Mg/NBC as a phosphorous-release fertilizer and illustrates a circular economy approach for spent coffee grounds.
Existence and L^2 decay estimate of global strong solution for 2-D incompressible Navier-Stokes equations with logarithmic damping
Authors: Zhou Jinhui , Huo Wenwen 
Published: December 2022

Abstract
In this paper, we consider the following Cauchy problem for the 2-D incompressible Navier-Stokes equations with logarithmic damping (1.1). We prove that the existence and uniqueness of global strong solution for the Cauchy problem by applying the classical energy estimates methods. Moreover, we show the the large time behavior of strong solution to the Cauchy problem by means of Fourier splitting method.
Development and validation of sensitive BCR::ABL1 fusion gene quantitation using next-generation sequencing
Authors: Lee Hyeon Ah , Seo Jieun , Shin Saeam , Lee Seung-Tae , Choi Jong Rak 
Published: December 2022

Abstract
Background
BCR::ABL1 fusion has significant prognostic value and is screened for chronic myeloid leukaemia (CML) disease monitoring as a part of routine molecular testing. To overcome the limitations of the current standard real-time quantitative polymerase chain reaction (RQ-PCR), we designed and validated a next-generation sequencing (NGS)-based assay to quantify BCR::ABL1 and ABL1 transcript copy numbers.
Methods
After PCR amplification of the target sequence, deep sequencing was performed using an Illumina Nextseq 550Dx sequencer and in-house–designed bioinformatics pipeline. The Next-generation Quantitative sequencing (NQ-seq) assay was validated for its analytical performance, including precision, linearity, and limit of detection, using serially diluted control materials. A comparison with conventional RQ-PCR was performed with 145 clinical samples from 77 patients.
Results
The limit of detection of the NQ-seq was the molecular response (MR) 5.6 [BCR::ABL1 0.00028% international scale (IS)]. The NQ-seq exhibited excellent precision and linear range from MR 2.0 to 5.0. The IS value from the NQ-seq was highly correlated with conventional RQ-PCR.
Conclusions
We conclude that the NQ-seq is an effective tool for monitoring BCR::ABL1 transcripts in CML patients with high sensitivity and reliability. Prospective assessment of the unselected large series is required to validate the clinical impact of this NGS-based monitoring strategy.
Circulating Metabolites as Potential Biomarkers for the Early Detection and Prognosis Surveillance of Gastric and Colon Cancers
Authors: Song Guodong , Wang Li , Tang Junlong , Li Haohui , Pang Shuyu , Li Yan , Liu Li , Hu Junyuan 
Published: December 2022

Abstract
Background and aims
Two of the most lethal gastrointestinal (GI) cancers, gastric cancer (GC) and colon cancer (CC), are ranked in the top five cancers that cause deaths worldwide. Most GI cancer deaths can be reduced by earlier detection and more appropriate medical treatment. Unlike the current “gold standard” techniques, non-invasive and highly sensitive screening tests are required for GI cancer diagnosis. Here, we aimed to discriminate GI cancers from non-cancers and even allow the classification of cancer subtypes by assessing the alterations in metabolites for a specific cancer type.
Methods
Plasma samples from 37 gastric cancer (GC), 17 colon cancer (CC), and 27 non-cancer (NC) patients were analyzed using three MS-based platforms. Univariate, multivariate, and clustering analyses were used for selecting significant features. ROC curve analysis was based on a series of different binary classifications as well as the true-positive rate (sensitivity) and the false-positive rate (1-specificity).
Results
Gastric cancer (GC) and colon cancer (CC) exhibited different degrees of cellular metabolism reprogramming. The discriminated metabolites between cancer and non-cancer groups distinguished GI cancer and cancer types. We also applied this test to before- and after-surgery samples, wherein surgical resection significantly altered the blood-metabolic patterns.
Conclusion
The oncogenic reprogramming of metabolism is a hallmark of cancer that results in the unique metabolic profile of cancer cells. The use of these blood-based circulating metabolites for the earlier diagnosis and prognosis of GI cancer is a promising area of research.
Deletion of DYRK1A accelerates osteoarthritis progression through suppression of EGFR-ERK signaling
Authors: Liu Zhibo , Hu Shidong , Wu Jiangping , Quan Xiaolin , Shen Chen , Li Zhi , Yuan Xin , Li Xiangwei , Yu Chao , Wang Ting , Yao Xudong , Sun Xianding , Nie Mao 
Published: December 2022

Abstract
Purpose
Dual-specificity tyrosine phosphorylation regulated kinase 1A (DYRK1A) signaling is involved in the dynamic balance of catabolism and anabolism in articular chondrocytes. This study aimed to investigate the roles and mechanism of DYRK1A in the pathogenesis of osteoarthritis (OA).
Methods
The expressions of DYRK1A and its downstream signal epidermal growth factor receptor (EGFR) were detected in the cartilage of adult wild-type mice with destabilized medial meniscus (DMM) and articular cartilage of patients with OA. We measured the progression of osteoarthritis in chondrocyte-specific knockout DYRK1A(DYRK1A-cKO) mice after DMM surgery. Knee cartilage was histologically scored and assessed the effects of DYRK1A deletion on chondrocyte catabolism and anabolism. The effect of inhibiting EGFR signaling in chondrocytes from DYRK1A-cKO mice was analyzed.
Results
Trauma-induced OA mice and OA patients showed down-regulation of DYRK1A and EGFR signaling pathways. Conditional DYRK1A deletion aggravates DMM-induced cartilage degeneration, reduces the thickness of the superficial cartilage and increases the number of hypertrophic chondrocytes. The expression of collagen type II, p-ERK and aggrecan was also down-regulated, and the expression of collagen type X was up-regulated in the articular cartilage of these mice.
Conclusion
Our findings suggest that DYRK1A delays the progression of knee osteoarthritis in mice, at least in part, by maintaining EGFR-ERK signaling in articular chondrocytes.
Predictive Value of Forearm Muscle Oxygenation Parameters for Climbing-specific Finger Endurance and Competitive Climbing Performance
Authors: Winkler Marvin , Künzell Stefan , Augste Claudia 
Published: December 2022

Abstract
Purpose
Near-infrared spectroscopy (NIRS) is a valid and reliable method to assess forearm muscle oxygenation in sport climbing, focusing on evaluating single parameters. The study assessed the predictive value of various NIRS parameters in climbing-specific settings, during intermittent finger endurance testing and in a simulated climbing competition.
Methods
52 recreational climbers (28.5 ± 6.3 y) performed an intermittent finger endurance test and 10 competitive climbers (20.2 ± 6.3 y) participated in a simulated lead climbing competition. Continuous-wave NIRS were used to assess oxygenation and blood volume changes.
Results
NIRS parameters predicted 264 % of the variance in the intermittent test, with mean minima and maxima of O2Hb and mean maxima of TSI% of the single repetitions being the predictors. No significant differences existed between the last valid and the first nonvalid on the combined dependent variable. For the simulated competition, a statistically significant difference between the 20s intervals on the combined dependent variables were found with posthoc testing showing significant univariate within-subjects effects for HHb, tHb & TSI, but not for O2Hb.
Conclusion
The results indicate that for the intermittent test, high re- and deoxygenation abilities, and for the climbing competition, the accumulation of HHb concentration levels have the highest predictability.
Zalcman functional of logarithmic coefficients of inverse functions in certain classes of analytic functions
Authors: Lecko Adam , Śmiarowska Barbara 
Published: December 2022

Abstract
We study Hankel matrices whose entries are logarithmic coefficients of inverse functions in selected subclasses of analytic functions. Particularly, we give sharp bounds for the second Hankel determinant which reduces to Zalcman functional of logarithmic coefficients of inverse convex and starlike functions, as well as of functions of bounded turning.
Mathematics Subject Classification (2010) 30C45 · 30C50 · 30C55
Evaluation of the performance of "Advantage P.f. Malaria Card® " and " Advantage Malaria Pan+Pf Card® " two rapid diagnostic tests for biological confirmation of malaria cases in field situation in Togo
Authors: TEOU Diwaba Carmel , DORKENOO Ameyo Monique , ATABA Essoham , YAKPA Kossi , ABDOU-KERIM Agueregna , MAMAN Issaka , AGBONON Amegnona 
Published: December 2022

Abstract
Background
In Togo, malaria remains a major public health problem and the management of suspected cases requires confirmation with appropriate biological methods. Indeed, malaria diagnosis has been improved through the introduction of rapid diagnostic tests (RDTs), recommended by the World Health Organization (WHO) for areas where microscopy is not available. To be used, these RDTs must meet performance criteria defined by the WHO. This study was conducted to evaluate the diagnostic performance of two RDTs: Advantage P.f. Malaria Card® detecting HRP2 antigen and Advantage Malaria Pan + Pf Card® detecting both HRP2 and pLDH antigens.
Methods
This was a cross sectional analytical study conducted from December 2019 to February 2020 on malaria suspected cases seen in three sentinel sites in Togo and from whom capillary blood was collected to perform the two RDTs according to the procedures described by the manufacturer. The performance was estimated comparing to thick/thin blood smear and molecular biology (PCR), considered as gold standard.
Results
The sensitivity of both Advantage P.f. Malaria Card® and Advantage Malaria Pan + Pf Card® compared to thick /thin blood smear was 91.8% and 91.3% respectively and for both the specificity was 94.7%. Compared to PCR, the sensitivity decreased to 89.4% and 88.9% respectively and their specificity to 72.2%.
Conclusion
The performance of the Advantage P.f. Malaria Card® and Advantage Malaria PAN + Pf Card® compared to microscopy, considered as the gold standard, according to WHO criteria were acceptable. They can therefore be used for the biological diagnosis of malaria.
Ammonium-based ionic liquids: cross-validation of energetics using solution calorimetry, quartz crystal microbalance, quantum chemistry, and structure– property relationships
Authors: Verevkin Sergey P. , Zaitsau Dzmitry H. , Yermalayeu Andrei V. , Vostrikov Sergey V. 
Published: December 2022

Abstract

The solution enthalpies of tetra-methyl- and tetra-butyl-ammonium tetra-fluoroborates were measured using solution calorimetry. The sublimation enthalpies and vaporisation enthalpies of ammonium-based ionic liquids with the anions [BF4] and [NO3], were derived from temperature dependencies of the vapor pressures, measured with a quartz crystal microbalance and adjusted to the reference temperature 298.15 K. The solution calorimetry results were used to derive the solid phase enthalpies of formation of the compounds studied. The latter results were combined with the sublimation enthalpies to obtain the experimental gas phase formation enthalpies of the ionic liquid containing [BF4] and [NO3] anions. The theoretical gas phase formation enthalpies were calculated using the quantum chemical method G3MP2 and agree well with the experimental results. Different types of structure–property relationships were used to establish the consistency of the alkyl-ammonium-based ionic liquids studied in this work.
Specific morphological features of congenital heart disease relevant to outcomes in patients with right isomerism
Authors: Tomita Yoshitaka , Muneuchi Jun , Ezaki Hiroski , Kobayashi Masaru , Yamada Hiromu , Sugitani Yuichiro , Watanabe Mamie 
Published: December 2022

Abstract
Purpose
Children with right isomerism accompany complex congenital heart disease, which is related to high mortality and morbidity, especially total anomalous pulmonary venous connection and common atrioventricular valve regurgitation. This study aimed to explore specific cardiac morphological features relevant to poor outcomes based on computed tomography (CT) in children with right isomerism.
Methods
We retrospectively reviewed contrasted CT images in patients with right isomerism, and assessed cardiac morphological features including the atrial and ventricular connections, the special relationship between the aorta and the pulmonary trunk, the appendages, pulmonary venous channels, and caval veins. In particular, we focused symmetry of the heart base which was defined as the atrial appendages were symmetrically positioned on either side of the antero-posteriorly great arteries. We analyzed the morphological features relevant to total anomalous pulmonary venous connection which is the risks for poor outcomes.
Results
Thirty patients with right isomerism were studied. Atrial situs was classified into situs in 11, and inversus in 19 patients. Atrioventricular and ventriculoarterial discordances were observed in 17 and 26 patients, respectively. Ventricular morphological features included single ventricle in 14, unbalanced atrioventricular septal defect in 6, pulmonary atresia in 11, pulmonary stenosis in 17, and bilateral superior caval veins in 14. There were 18 patients (60%) with extracardiac total anomalous pulmonary venous drainage (preoperative obstruction: N = 8), which was significantly correlated to symmetry of the heart base (P < 0.001).
Conclusions
The heart base symmetry correlated to total anomalous pulmonary venous drainage.
Association between dietary hardness and cognitive dysfunction among Japanese men in their 60s: a cross-sectional study
Authors: Fujiwara Aya , Fukunaga Ami , Murakami Kentaro , Inoue Yosuke , Nakagawa Tohru , Yamamoto Shuichiro , Konishi Maki , Mizoue Tetsuya 
Published: December 2022

Abstract
Background: Although the association between dietary components (e.g. nutrients, foods, and dietary patterns) and cognitive dysfunction has been extensively investigated, a limited number of studies have been conducted on dietary hardness, despite its possible role in increasing masticatory activity and improving cognitive function. We aimed to examine the cross-sectional association between the hardness of habitual diet and cognitive dysfunction among Japanese men in their 60s.
Methods: Data were obtained from 1,494 men aged 60– 69 years who participated in the baseline survey of Hitachi Health Study II (2017–2020). Dietary hardness was assessed using the information on the habitual intake of solid foods, which was assessed using a brief-type, self-administered diet history questionnaire, and the magnitude of masticatory muscle activity required for consuming each food item, which was available in a published database. The sum of masticatory muscle activity involved in consuming food items was used as an estimate of dietary hardness. Cognitive dysfunction was defined as a score ≤ 13 points on the test battery for screening for Alzheimer’s disease (MSP-1100). Logistic regression models were used to examine the association between dietary hardness and cognitive dysfunction.
Results: The mean (standard deviation) age of participants was 63.5 (3.5) years. The prevalence of cognitive dysfunction was 7.5%. The odds ratios (95% confidence intervals) for cognitive dysfunction in the second and third tertiles were: 0.76 (0.46, 1.25) and 0.86 (0.53, 1.39), respectively, after adjustment for socio-demographic factors (P for trend = 0.70). After further adjustment for protective nutrient intake against cognitive dysfunction, the corresponding figures were 0.72 (0.43, 1.21) and 0.79 (0.43, 1.45), respectively (P for trend = 0.60).
Conclusions: Hardness of the habitual diet was not associated with the prevalence of cognitive dysfunction among Japanese men in their 60s. Future prospective studies are necessary to investigate the association between dietary hardness estimated a validated questionnaire and cognitive dysfunctions.
The incidence of postoperative vasopressor usage, a prospective international observational study: ‘SQUEEZE’
Authors: Creagh-Brown Ben , Wunsch Hannah , Martin Peter , Harlem Pierre , Forni Lui , Moonesinghe S. Ramani , Jammer Ib 
Published: December 2022

Abstract
Background: Postoperative hypotension is common after major non-cardiac surgery, due predominantly to vasodilatation. Administration of infused vasopressors postoperatively may often be considered a surrogate indicator of vasodilatation. The incidence of postoperative vasopressors and outcomes associated with their use has never been described.
We hypothesise that there is variation across centres in using vasopressors after surgery. There may also be a variation in the incidence of organ dysfunction, organ support use, and clinical outcomes in patients treated with postoperative vasopressor therapy.
Method: The primary objective of this study is to determine what proportion of patients receive postoperative vasopressor infusions. We will identify factors in variation of care (patient, condition, surgery, and intraoperative management) associated with the receipt of postoperative vasopressor infusions. We will also assess the incidence of associated organ dysfunction and clinical outcomes among those who receive vasopressors. This will be accomplished with a prospective, international, multicentre cohort study that includes all adult (≥18 years) non-cardiac surgical patients in participating centres. Patients undergoing cardiac, obstetric or day-case surgery will be excluded. We will recruit two cohorts of patients: Cohort A will include all eligible patients admitted to participating hospitals for seven consecutive days. Cohort B will include 30 sequential patients per hospital, with the single additional inclusion criterion of postoperative vasopressor usage. We expect to collect data on approximately 40,000 patients for cohort A and 12,800 patients for cohort B.
Discussion: While in cardiac surgery, clinical trials have informed the choice of vasopressors used to treat postoperative vasoplegia, there remains equipoise over the best approach in non-cardiac surgery. Our study will represent the first large-scale assessment of the use of vasopressors after non-cardiac surgery. These data will inform future studies, including trials of different vasopressors and potential management options to improve outcomes and reduce resource use after surgery.
Trial registration: ClinicalTrials.gov Identifier: NCT03805230, 15th January 2019