bluuebunny/crossref_metadata_2025_split huggingface dataset:
Recent trends and economic significance of modified/functionalized biochars for remediation of environmental pollutants
Authors: Murtaza Ghulam , Ahmed Zeeshan , Valipour Mohammad , Ali Iftikhar , Usman Muhammad , Iqbal Rashid , Zulfiqar Usman , Rizwan Muhammad , Mahmood Salman , Ullah Abd , Arslan Muhammad , Rehman Muhammad Habib ur , Ditta Allah , Tariq Akash 
Published: January 2024

AbstractThe pollution of soil and aquatic systems by inorganic and organic chemicals has become a global concern. Economical, eco-friendly, and sustainable solutions are direly required to alleviate the deleterious effects of these chemicals to ensure human well-being and environmental sustainability. In recent decades, biochar has emerged as an efficient material encompassing huge potential to decontaminate a wide range of pollutants from soil and aquatic systems. However, the application of raw biochars for pollutant remediation is confronting a major challenge of not getting the desired decontamination results due to its specific properties. Thus, multiple functionalizing/modification techniques have been introduced to alter the physicochemical and molecular attributes of biochars to increase their efficacy in environmental remediation. This review provides a comprehensive overview of the latest advancements in developing multiple functionalized/modified biochars via biological and other physiochemical techniques. Related mechanisms and further applications of multiple modified biochar in soil and water systems remediation have been discussed and summarized. Furthermore, existing research gaps and challenges are discussed, as well as further study needs are suggested. This work epitomizes the scientific prospects for a complete understanding of employing modified biochar as an efficient candidate for the decontamination of polluted soil and water systems for regenerative development.
Acanthopanax senticosus ameliorates steatohepatitis through HNF4 alpha pathway activation in mice
Authors: Kawano Yutaka , Tanaka Maki , Satoh Yasushi , Sugino Shigekazu , Suzuki Jun , Fujishima Masaki , Okumura Eri , Takekoshi Hideo , Uehara Osamu , Sugita Shintaro , Abiko Yoshihiro , Tomonari Tetsu , Tanaka Hironori , Takeda Hidekatsu , Takayama Tetsuji 
Published: January 2024

AbstractNon-alcoholic fatty liver disease is a common liver disease worldwide, and is associated with dysregulation of lipid metabolism, leading to inflammation and fibrosis. Acanthopanax senticosus Harms (ASH) is widely used in traditional medicine as an adaptogen food. We examined the effect of ASH on steatohepatitis using a high-fat diet mouse model. Mice were fed a choline-deficient, l-amino acid-defined, high-fat diet with ASH extract (ASHE). After 6 weeks, liver RNA transcriptome sequencing (RNA-Seq) was performed, followed by Ingenuity Pathway Analysis (IPA). Our findings revealed that mice fed a high-fat diet with 5% ASHE exhibited significantly reduced liver steatosis. These mice also demonstrated alleviated inflammation and reduced fibrosis in the liver. IPA of RNA-Seq indicated that hepatocyte nuclear factor 4 alpha (HNF4 alpha), a transcription factor, was the activated upstream regulator (P-value 0.00155, z score = 2.413) in the liver of ASHE-fed mice. Adenosine triphosphate binding cassette transporter 8 and carboxylesterase 2, downstream targets of HNF4 alpha pathway, were upregulated. Finally, ASHE-treated HepG2 cells exposed to palmitate exhibited significantly decreased lipid droplet contents. Our study provides that ASHE can activate HNF4 alpha pathway and promote fat secretion from hepatocytes, thereby serving as a prophylactic treatment for steatohepatitis in mice.
Histogram-based features track Alzheimer's progression in brain MRI
Authors: Pasnoori Nikaash , Flores-Garcia Thania , Barkana Buket D. 
Published: January 2024

AbstractAlzheimer's disease is a form of general dementia marked by amyloid plaques, neurofibrillary tangles, and neuron degeneration. The disease has no cure, and early detection is critical in improving patient outcomes. Magnetic resonance imaging (MRI) is important in measuring neurodegeneration during the disease. Computer-aided image processing tools have been used to aid medical professionals in ascertaining a diagnosis of Alzheimer's in its early stages. As characteristics of non and very-mild dementia stages overlap, tracking the progression is challenging. Our work developed an adaptive multi-thresholding algorithm based on the morphology of the smoothed histogram to define features identifying neurodegeneration and track its progression as non, very mild, mild, and moderate. Gray and white matter volume, statistical moments, multi-thresholds, shrinkage, gray-to-white matter ratio, and three distance and angle values are mathematically derived. Decision tree, discriminant analysis, Naïve Bayes, SVM, KNN, ensemble, and neural network classifiers are designed to evaluate the proposed methodology with the performance metrics accuracy, recall, specificity, precision, F1 score, Matthew’s correlation coefficient, and Kappa values. Experimental results showed that the proposed features successfully label the neurodegeneration stages.
Effect of monopolar diathermy power settings on postoperative pain, wound healing, and tissue damage after tonsillectomy: a randomized clinical trial
Authors: Yun Ju Hyun , Jang Jeon Yeob , Shin Yoo Seob , Kim Hyun Jun , Kim Chul-Ho , Park Do-Yang 
Published: January 2024

AbstractThis study aimed to assess the impact of varying monopolar diathermy power settings on postoperative pain, hemorrhage, and wound healing following tonsillectomy. A single-center, prospective, randomized, double-blinded, controlled clinical study was conducted. During bilateral tonsillectomy procedures, one tonsil received low-power settings (15 W, cutting/blend) while the other tonsil received high-power settings (35 W, cutting/blend). Postoperative pain scores (0–10) and wound healing scores (0–3) were evaluated immediately after surgery and at 1, 2, and 4 weeks postoperatively using the visual analog scale. Additionally, histological analysis was performed on electrically resected tonsil tissues to assess tissue damage in the tonsil bed. The allocation of high and low power settings to each side was randomized. Results showed that 1 week after the surgery, the high-power group experienced significantly higher pain scores (mean ± standard deviation: 4.84 ± 2.21) compared to the low-power group (3.56 ± 2.24, p = 0.049). Moreover, the high-power side exhibited slower wound healing during the initial 1–2 weeks postoperatively, as indicated by lower wound scores at 2 weeks (high-power: 1.96 ± 0.64; low-power: 2.43 ± 0.59, p = 0.008). Furthermore, histological analysis revealed significantly deeper tissue degradation on the high-power side compared to the low-power side (p < 0.001), with mean depths of 565.2 ± 291.0 µm and 156.0 ± 36.8 µm, respectively. In conclusion, these findings suggest that when employing monopolar diathermy in tonsillectomy, lower power settings can lead to improved outcomes in terms of postoperative pain, wound healing, and tissue damage.Trial registration: CRIS identifier: KCT0005670 (cris.nih.go.kr, registration date: 11/12/2020).
Distinct patterns of proteostasis network gene expression are associated with different prognoses in melanoma patients
Authors: Wellman Rachel , Jacobson Daniel , Secrier Maria , Labbadia John 
Published: January 2024

AbstractThe proteostasis network (PN) is a collection of protein folding and degradation pathways that spans cellular compartments and acts to preserve the integrity of the proteome. The differential expression of PN genes is a hallmark of many cancers, and the inhibition of protein quality control factors is an effective way to slow cancer cell growth. However, little is known about how the expression of PN genes differs between patients and how this impacts survival outcomes. To address this, we applied unbiased hierarchical clustering to gene expression data obtained from primary and metastatic cutaneous melanoma (CM) samples and found that two distinct groups of individuals emerge across each sample type. These patient groups are distinguished by the differential expression of genes encoding ATP-dependent and ATP-independent chaperones, and proteasomal subunits. Differences in PN gene expression were associated with increased levels of the transcription factors, MEF2A, SP4, ZFX, CREB1 and ATF2, as well as markedly different survival outcomes. However, surprisingly, similar PN alterations in primary and metastatic samples were associated with discordant survival outcomes in patients. Our findings reveal that the expression of PN genes demarcates CM patients and highlights several new proteostasis sub-networks that could be targeted for more effective suppression of CM within specific individuals.
Using inertial measurement units to estimate spine joint kinematics and kinetics during walking and running
Authors: Sibson Benjamin E. , Banks Jacob J. , Yawar Ali , Yegian Andrew K. , Anderson Dennis E. , Lieberman Daniel E. 
Published: January 2024

AbstractOptical motion capture (OMC) is considered the best available method for measuring spine kinematics, yet inertial measurement units (IMU) have the potential to collect data outside the laboratory. When combined with musculoskeletal modeling, IMU technology may be used to estimate spinal loads in real-world settings. To date, IMUs have not been validated for estimates of spinal movement and loading during both walking and running. Using OpenSim Thoracolumbar Spine and Ribcage models, we compare IMU and OMC estimates of lumbosacral (L5/S1) and thoracolumbar (T12/L1) joint angles, moments, and reaction forces during gait across six speeds for five participants. For comparisons, time series are ensemble averaged over strides. Comparisons between IMU and OMC ensemble averages have low normalized root mean squared errors (< 0.3 for 81% of comparisons) and high, positive cross-correlations (> 0.5 for 91% of comparisons), suggesting signals are similar in magnitude and trend. As expected, joint moments and reaction forces are higher during running than walking for IMU and OMC. Relative to OMC, IMU overestimates joint moments and underestimates joint reaction forces by 20.9% and 15.7%, respectively. The results suggest using a combination of IMU technology and musculoskeletal modeling is a valid means for estimating spinal movement and loading.
3D integral imaging of acoustically trapped objects
Authors: Mohsenvand Kooshan , Carnicer Artur , Marmiroli Benedetta , Moradi Ali-Reza 
Published: January 2024

Abstract3D imaging provides crucial details about the objects and scenes that may not be obtained via 2D imaging methods. However, there are several applications in which the object to be 3D-imaged requires to be immobilized. The integrated digital holographic microscopy (DHM) and optical trapping (OT) system is a useful solution for such a task, but both DHM and OT are mostly suitable for microscopic specimens. Here, for the first time to the best of our knowledge and as an analogy to the DHM-OT system, we introduce integral imaging (InIm) and acoustic trapping (AT) integrated system for 3D imaging of immobilized mesoscopic and macroscopic objects. Post-processing of InIm data enables reconstructing the scene at any arbitrary plane, therefore, it re-focuses any particular depth of the object, which is a curtail task, especially when the object is trapped by AT. We demonstrate the capability of our system by simultaneous trapping and 3D imaging of single and multiple irregularly shaped objects with mm sizes.
Artificial intelligence enhanced ophthalmological screening in children: insights from a cohort study in Lubelskie Voivodeship
Authors: Piotr Regulski , Robert Rejdak , Marek Niezgódka , Michał Iwański 
Published: January 2024

AbstractThis study aims to investigate the prevalence of visual impairments, such as myopia, hyperopia, and astigmatism, among school-age children (7–9 years) in Lubelskie Voivodeship (Republic of Poland) and apply artificial intelligence (AI) in the detection of severe ocular diseases. A total of 1049 participants (1.7% of the total child population in the region) were examined through a combination of standardized visual acuity tests, autorefraction, and assessment of fundus images by a convolutional neural network (CNN) model. The results from this artificial intelligence (AI) model were juxtaposed with assessments conducted by two experienced ophthalmologists to gauge the model's accuracy. The results demonstrated myopia, hyperopia, and astigmatism prevalences of 3.7%, 16.9%, and 7.8%, respectively, with myopia showing a significant age-related increase and hyperopia decreasing with age. The AI model performance was evaluated using the Dice coefficient, reaching 93.3%, indicating that the CNN model was highly accurate. The study underscores the utility of AI in the early detection and diagnosis of severe ocular diseases, providing a foundation for future research to improve paediatric ophthalmic screening and treatment outcomes.
Inhibition of DNMT3B expression in activated hepatic stellate cells overcomes chemoresistance in the tumor microenvironment of hepatocellular carcinoma
Authors: Song Yeonhwa , Kim Namjeong , Heo Jinyeong , Shum David , Heo Taemoo , Seo Haeng Ran 
Published: January 2024

AbstractHepatocellular carcinoma (HCC) is a complex disease associated with a plethora of environmental and genetic/hereditary causative risk factors, more so than other oncological indications. Additionally, patients with HCC exhibit fibrosis, cirrhosis, and liver-related disease. This complicated etiology can affect the disease course and likely contributes to its poor prognosis. In this study, we aimed to improve HCC therapy by evaluating combination treatment using anti-cancer and anti-fibrosis drugs via identification of novel anti-fibrosis drugs. We performed high-throughput screening of 10,000 compounds to identify hepatic fibrosis inhibitors through morphometry analysis of multicellular hepatic spheroid (MCHS) models and identified CHIR-99021 as a candidate anti-fibrotic drug. Treatment with CHIR-99021 induced loss of cell–cell interactions and suppression of extracellular matrix-related protein expression via reprogramming of hepatic stellate cell (HSC) activation in MCHSs. In particular, CHIR-99021 regulated DNMT3B expression only in activated HSCs. Moreover, CHIR-99021 markedly improved the efficacy of sorafenib in HCC- multicellular tumor spheroids in vitro and through induction of apoptosis by decreasing DNMT3B expression in vivo. In summary, these findings suggest that targeting HSC reprogramming by attenuation of DNMT3B expression in the tumor environment might represent a promising therapeutic strategy for liver fibrosis and HCC.
Exploring the costs of phenotypic plasticity for evolvable digital organisms
Authors: Miras Karine 
Published: January 2024

AbstractPhenotypic plasticity is usually defined as a property of individual genotypes to produce different phenotypes when exposed to different environmental conditions. While the benefits of plasticity for adaptation are well established, the costs associated with plasticity remain somewhat obscure. Understanding both why and how these costs arise could help us explain and predict the behavior of living creatures as well as allow the design of more adaptable robotic systems. One of the challenges of conducting such investigations concerns the difficulty of isolating the effects of different types of costs and the lack of control over environmental conditions. The present study addresses these challenges by using virtual worlds (software) to investigate the environmentally regulated phenotypic plasticity of digital organisms. The experimental setup guarantees that potential genetic costs of plasticity are isolated from other plasticity-related costs. Multiple populations of organisms endowed with and without phenotypic plasticity in either the body or the brain are evolved in simulation, and organisms must cope with different environmental conditions. The traits and fitness of the emergent organisms are compared, demonstrating cases in which plasticity is beneficial and cases in which it is neutral. The hypothesis put forward here is that the potential benefits of plasticity might be undermined by the genetic costs related to plasticity itself. The results suggest that this hypothesis is true, while further research is needed to guarantee that the observed effects unequivocally derive from genetic costs and not from some other (unforeseen) mechanism related to plasticity.
Using deep learning and molecular dynamics simulations to unravel the regulation mechanism of peptides as noncompetitive inhibitor of xanthine oxidase
Authors: He Yi , Liu Kaifeng , Cao Fuyan , Song Renxiu , Liu Jianxuan , Zhang Yinghua , Li Wannan , Han Weiwei 
Published: January 2024

AbstractXanthine oxidase (XO) is a crucial enzyme in the development of hyperuricemia and gout. This study focuses on LWM and ALPM, two food-derived inhibitors of XO. We used molecular docking to obtain three systems and then conducted 200 ns molecular dynamics simulations for the Apo, LWM, and ALPM systems. The results reveal a stronger binding affinity of the LWM peptide to XO, potentially due to increased hydrogen bond formation. Notable changes were observed in the XO tunnel upon inhibitor binding, particularly with LWM, which showed a thinner, longer, and more twisted configuration compared to ALPM. The study highlights the importance of residue F914 in the allosteric pathway. Methodologically, we utilized the perturbed response scan (PRS) based on Python, enhancing tools for MD analysis. These findings deepen our understanding of food-derived anti-XO inhibitors and could inform the development of food-based therapeutics for reducing uric acid levels with minimal side effects.
Biomechanical response of lower limb joints to lateral wedge insoles
Authors: Du Weijin , Guo Yuan , Wang Chenyan , Cui Weiling , Chen Weiyi , Li Xiaona 
Published: January 2024

AbstractLateral wedge insole (LWI) is a frequently recommended treatment option for early and midterm stages of medial knee osteoarthritis. However, studies of its effects on the lower limb joints are incomplete and imperfect. The main purpose of this study was to quantitatively analyze the response of intervention of LWI on lower-limb joint kinematics, ground reaction forces (GRFs), and centre of pressure (COP). Gait analysis of 16 healthy subjects was conducted. Three-dimensional motion data and force plate measurements were collected in the control (barefoot) and experimental conditions (wearing a pair of assigned shoes with 0, 7, and 10 mm LWIs). Results showed that the peak knee flexion angle was increased by 3.43°, 3.09°, and 3.27° with 0, 7, and 10 mm LWIs, respectively (p < 0.01). The ankle peak dorsiflexion angle was significantly decreased by 3.79°, 2.19°, and 1.66° with 0, 7, and 10 mm LWIs, respectively (p = 0.02). The internal rotation angle was increased by 2.78°, 3.76°, and 4.58° with 0, 7, and 10 mm LWIs, respectively (p < 0.01). The forefoot with LWIs showed highly significantly smaller inversion, eversion, and adduction angles (all p < 0.01). The 1st peak of the vertical GRF (p = 0.016) also increased significantly by a maximum of 0.06 body weight (BW) with LWIs. These results indicated that biomechanical changes and limitations of lateral wedges insole should be analyzed in more detail, possibly leading to new guidelines for the design and application.
Factors associated with late initiation of antiretroviral therapy in Iran’s HIV/AIDS surveillance data
Authors: sharafi Mehdi , Mirahmadizadeh Alireza , Hassanzadeh Jafar , Seif Mozhgan , Heiran Alireza 
Published: January 2024

AbstractEarly initiation of Antiretroviral Treatment (ART) in HIV patients is essential for effectively suppressing the viral load and prognosis. This study utilized National HIV/AIDS Surveillance Data in Iran to identify factors associated factors with the duration to initiate ART. This hybrid cross-sectional historical cohort study was conducted on Iran’s National HIV/AIDS Surveillance Data from 2001 to 2019. Sociodemographic characteristics, route of transmission, HIV diagnosis date, and ART initiation date were collected. Multivariable linear and quantile regression models were employed to analyze the duration to initiate ART by considering predictor variables. This study included 17,062 patients (mean age 34.14 ± 10.77 years, 69.49% males). Multivariate quantile regression coefficients varied across different distributions of the dependent variable (i.e., duration to initiate ART) for several independent variables. Generally, male gender, injecting drug use (IDU), and having an HIV-positive spouse were significantly associated with an increased duration to initiate ART (p < 0.05). However, a significant decrease was observed in older patients, those with a university level education, men who had sex with men (MSM), and patients diagnosed after 2016 (p < 0.05). Despite improvements in the duration to initiate ART after implementing the WHO’s 2016 program in Iran, various sociodemographic groups were still vulnerable to delayed ART initiation in the region. Therefore, programs including early testing, early ART initiation, active care, educational and cultural interventions, and appropriate incentives are required for these groups.
Effect of hormone-induced plasma membrane phosphatidylinositol 4,5-bisphosphate depletion on receptor endocytosis suggests the importance of local regulation in phosphoinositide signaling
Authors: Tóth Dániel J. , Tóth József T. , Damouni Amir , Hunyady László , Várnai Péter 
Published: January 2024

AbstractPhosphatidylinositol 4,5-bisphosphate (PIP2) has been shown to be critical for the endocytosis of G protein-coupled receptors (GPCRs). We have previously demonstrated that depletion of PIP2 by chemically induced plasma membrane (PM) recruitment of a 5-phosphatase domain prevents the internalization of the β2 adrenergic receptor (β2AR) from the PM to early endosomes. In this study, we tested the effect of hormone-induced PM PIP2 depletion on β2AR internalization using type-1 angiotensin receptor (AT1R) or M3 muscarinic acetylcholine receptor (M3R). We followed the endocytic route of β2ARs in HEK 293T cells using bioluminescence resonance energy transfer between the receptor and endosome marker Rab5. To compare the effect of lipid depletion by different means, we created and tested an AT1R fusion protein that is capable of both recruitment-based and hormone-induced depletion methods. The rate of PM PIP2 depletion was measured using a biosensor based on the PH domain of phospholipase Cδ1. As expected, β2AR internalization was inhibited when PIP2 depletion was evoked by recruiting 5-phosphatase to PM-anchored AT1R. A similar inhibition occurred when wild-type AT1R was activated by adding angiotensin II. However, stimulation of the desensitization/internalization-impaired mutant AT1R (TSTS/4A) caused very little inhibition of β2AR internalization, despite the higher rate of measurable PIP2 depletion. Interestingly, inhibition of PIP2 resynthesis with the selective PI4KA inhibitor GSK-A1 had little effect on the change in PH-domain-measured PM PIP2 levels but did significantly decrease β2AR internalization upon either AT1R or M3R activation, indicating the importance of a locally synthetized phosphoinositide pool in the regulation of this process.