bluuebunny/crossref_metadata_2025_split huggingface dataset:
Different MRI structural processing methods do not impact functional connectivity computation
Authors: Zhang Lu , Pini Lorenzo , Corbetta Maurizio 
Published: May 2023

AbstractResting-state functional magnetic resonance imaging (rs-fMRI) has become an increasingly popular technique. This technique can assess several features of brain connectivity, such as inter-regional temporal correlation (functional connectivity), from which graph measures of network organization can be derived. However, these measures are prone to a certain degree of variability depending on the analytical steps during preprocessing. Many studies have investigated the effect of different preprocessing steps on functional connectivity measures; however, no study investigated whether different structural reconstructions lead to different functional connectivity metrics. Here, we evaluated the impact of different structural segmentation strategies on functional connectivity outcomes. To this aim, we compared different metrics computed after two different registration strategies. The first strategy used structural information from the 3D T1-weighted image (unimodal), while the second strategy implemented a multimodal approach, where an additional registration step used the information from the T2-weighted image. The impact of these different approaches was evaluated on a sample of 58 healthy adults. As expected, different approaches led to significant differences in structural measures (i.e., cortical thickness, volume, and gyrification index), with the maximum impact on the insula cortex. However, these differences were only slightly translated to functional metrics. We reported no differences in graph measures and seed-based functional connectivity maps, but slight differences in the insula when we compared the mean functional strength for each parcel. Overall, these results suggested that functional metrics are only slightly different when using a unimodal compared to a multimodal approach, while the structural output can be significantly affected.
Early radial positional information in the cochlea is optimized by a precise linear BMP gradient and enhanced by SOX2
Authors: Thompson Matthew J. , Young Caryl A. , Munnamalai Vidhya , Umulis David M. 
Published: May 2023

AbstractPositional information encoded in signaling molecules is essential for early patterning in the prosensory domain of the developing cochlea. The sensory epithelium, the organ of Corti, contains an exquisite repeating pattern of hair cells and supporting cells. This requires precision in the morphogen signals that set the initial radial compartment boundaries, but this has not been investigated. To measure gradient formation and morphogenetic precision in developing cochlea, we developed a quantitative image analysis procedure measuring SOX2 and pSMAD1/5/9 profiles in mouse embryos at embryonic day (E)12.5, E13.5, and E14.5. Intriguingly, we found that the pSMAD1/5/9 profile forms a linear gradient up to the medial ~ 75% of the PSD from the pSMAD1/5/9 peak in the lateral edge during E12.5 and E13.5. This is a surprising activity readout for a diffusive BMP4 ligand secreted from a tightly constrained lateral region since morphogens typically form exponential or power-law gradient shapes. This is meaningful for gradient interpretation because while linear profiles offer the theoretically highest information content and distributed precision for patterning, a linear morphogen gradient has not yet been observed. Furthermore, this is unique to the cochlear epithelium as the pSMAD1/5/9 gradient is exponential in the surrounding mesenchyme. In addition to the information-optimized linear profile, we found that while pSMAD1/5/9 is stable during this timeframe, an accompanying gradient of SOX2 shifts dynamically. Last, through joint decoding maps of pSMAD1/5/9 and SOX2, we see that there is a high-fidelity mapping between signaling activity and position in the regions that will become Kölliker’s organ and the organ of Corti. Mapping is ambiguous in the prosensory domain precursory to the outer sulcus. Altogether, this research provides new insights into the precision of early morphogenetic patterning cues in the radial cochlea prosensory domain.
Learning dispatching rules via novel genetic programming with feature selection in energy-aware dynamic job-shop scheduling
Authors: Sitahong Adilanmu , Yuan Yiping , Li Ming , Ma Junyan , Ba Zhiyong , Lu Yongxin 
Published: May 2023

AbstractThe incorporation of energy conservation measures into production efficiency is widely recognized as a crucial aspect of contemporary industry. This study aims to develop interpretable and high-quality dispatching rules for energy-aware dynamic job shop scheduling (EDJSS). In comparison to the traditional modeling methods, this paper proposes a novel genetic programming with online feature selection mechanism to learn dispatching rules automatically. The idea of the novel GP method is to achieve a progressive transition from exploration to exploitation by relating the level of population diversity to the stopping criteria and elapsed duration. We hypothesize that diverse and promising individuals obtained from the novel GP method can guide the feature selection to design competitive rules. The proposed approach is compared with three GP-based algorithms and 20 benchmark rules in the different job shop conditions and scheduling objectives considered energy consumption. Experiments show that the proposed approach greatly outperforms the compared methods in generating more interpretable and effective rules. Overall, the average improvement over the best-evolved rules by the other three GP-based algorithms is 12.67%, 15.38%, and 11.59% in the meakspan with energy consumption (EMS), mean weighted tardiness with energy consumption (EMWT), and mean flow time with energy consumption (EMFT) scenarios, respectively.
Magneto-strain effects in 2D ferromagnetic van der Waal material CrGeTe$$_3$$
Authors: Vijay Kritika , Vavilapalli Durga Sankar , Arya Ashok , Srivastava S. K. , Singh Rashmi , Sagdeo Archna , Jha S. N. , Kumar Kranti , Banik Soma 
Published: May 2023

AbstractThe idea of strain based manipulation of spins in magnetic two-dimensional (2D) van der Waal (vdW) materials leads to the development of new generation spintronic devices. Magneto-strain arises in these materials due to the thermal fluctuations and magnetic interactions which influences both the lattice dynamics and the electronic bands. Here, we report the mechanism of magneto-strain effects in a vdW material CrGeTe$$_3$$

3

across the ferromagnetic (FM) transition. We find an isostructural transition in CrGeTe$$_3$$

3

across the FM ordering with first order type lattice modulation. Larger in-plane lattice contraction than out-of-plane give rise to magnetocrystalline anisotropy. The signature of magneto-strain effects in the electronic structure are shift of the bands away from the Fermi level, band broadening and the twinned bands in the FM phase. We find that the in-plane lattice contraction increases the on-site Coulomb correlation ($$U_{eff}$$

U

eff

) between Cr atoms resulting in the band shift. Out-of-plane lattice contraction enhances the $$d-p$$

d
-
p

hybridization between Cr–Ge and Cr–Te atoms which lead to band broadening and strong spin-orbit coupling (SOC) in FM phase. The interplay between $$U_{eff}$$

U

eff

and SOC out-of-plane gives rise to the twinned bands associated with the interlayer interactions while the in-plane interactions gives rise to the 2D spin polarized states in the FM phase.
Application of quality-by-design for adopting an environmentally green fluorogenic determination of benoxinate hydrochloride in eye drops and artificial aqueous humour
Authors: El Hamd Mohamed A. , El-Maghrabey Mahmoud , Magdy Galal , Mahdi Wael A. , Alshehri Sultan , Bass Amr K. A. , Batakoushy Hany A. 
Published: May 2023

AbstractHerein, a sensitive and selective spectrofluorimetric method has been developed for the determination of the ocular local anesthetic benoxinate hydrochloride (BEN-HCl) in eye drops and artificial aqueous humour. The proposed method is based on the interaction of fluorescamine with the primary amino group of BEN-HCl at room temperature. Following the excitation of the reaction product at 393 nm, the emitted relative fluorescence intensity (RFI) was measured at 483 nm. The key experimental parameters were carefully examined and optimized by adopting an analytical quality-by-design approach. The method used a two-level full factorial design (24 FFD) to obtain the optimum RFI of the reaction product. The calibration curve was linear at the range of 0.10–1.0 μg/mL of BEN-HCl with sensitivity down to 0.015 μg/mL. The method was applied for analyzing the BEN-HCl eye drops and could also assess its spiked levels in artificial aqueous humour with high % recoveries (98.74–101.37%) and low SD values (≤ 1.11). To investigate the green profile of the proposed method, a greenness assessment was performed with the aid of the Analytical Eco-Scale Assessment (ESA) and GAPI. The developed method obtained a very high ESA rating score in addition to being sensitive, affordable, and environmentally sustainable. The proposed method was validated according to ICH guidelines.
Dietary antioxidants and liver enzymes in Rafsanjan, a Region in Southeast Iran
Authors: Khademalhosseini Morteza , Ranjbar Elham , Mohammadi Rezvan , Khalili Parvin , Mehran Mahya , Jalali Nazanin , Rajabi Zohreh , Jamali Zahra 
Published: May 2023

AbstractOxidative stress has been considered the main contributor to liver injury. Dietary antioxidants would be expected to improve liver function. The hepatoprotective effects of antioxidants are controversial. In the present study, the associations of some dietary antioxidants and the levels of serum liver enzymes were examined. This cross-sectional study was conducted using the Rafsanjan Cohort Study (RCS) data as a population-based prospective cohort which is a part of the Prospective Epidemiological Research Studies in IrAN (PERSIAN). A total of 9942 participants aged 35–70 years old were included in this study. Among this population, 4631 (46.59%) were male, and 5311 (53.42%) were female. Dietary intakes were collected by a validated food frequency questionnaire (FFQ) with 128 items. Aspartate transaminase (AST), Alanine transaminase (ALT), γ-glutamyl transferase (GGT), and Alkaline phosphatase (ALP) were measured by a biotecnica analyzer. Dichotomous logistics regression models were used to investigate the association between the elevated liver enzymes and intake of dietary antioxidants using crude and adjusted models. In the adjusted model, in subjects with higher consumption of Se, Vit A, Vit E, β-carotene, α-carotene, and β-cryptoxanthin, the odds ratios of elevated ALP were decreased compared to the reference group (ORs 0.79 (0.64–0.96), 0.80 (0.66–0.98), 0.73 (0.60–0.89), 0.79 (0.64–0.96), 0.78 (0.64–0.95), 0.80 (0.66–0.98), and 0.79 (0.64–0.98), respectively). Subjects with higher consumption of Se, Vit A, Vit E, and provitamin A carotenoids (β-carotene, α-carotene, β-cryptoxanthin) showed decreased odds of elevated ALP. These findings support the hypothesis that Se, Vit A, Vit E, and provitamin A carotenoids may be associated with improvements in ALP and act as suppressors against the development of liver injury.
Characterization of plasmids carrying blaCTX-M genes among extra-intestinal Escherichia coli clinical isolates in Ethiopia
Authors: Negeri Abebe Aseffa , Mamo Hassen , Gahlot Dharmender K. , Gurung Jyoti M. , Seyoum Eyasu Tigabu , Francis Matthew S. 
Published: May 2023

AbstractCTX-Ms are encoded by blaCTX-M genes and are widely distributed extended-spectrum β-lactamases (ESBLs). They are the most important antimicrobial resistance (AMR) mechanism to β-lactam antibiotics in the Enterobacteriaceae. However, the role of transmissible AMR plasmids in the dissemination of blaCTX-M genes has scarcely been studied in Africa where the burden of AMR is high and rapidly spreading. In this study, AMR plasmid transmissibility, replicon types and addiction systems were analysed in CTX-M-producing Escherichia coli clinical isolates in Ethiopia with a goal to provide molecular insight into mechanisms underlying such high prevalence and rapid dissemination. Of 100 CTX-Ms-producing isolates obtained from urine (84), pus (10) and blood (6) from four geographically distinct healthcare settings, 75% carried transmissible plasmids encoding for CTX-Ms, with CTX-M-15 being predominant (n = 51). Single IncF plasmids with the combination of F-FIA-FIB (n = 17) carried the bulk of blaCTX-M-15 genes. In addition, IncF plasmids were associated with multiple addiction systems, ISEcp1 and various resistance phenotypes for non-cephalosporin antibiotics. Moreover, IncF plasmid carriage is associated with the international pandemic E. coli ST131 lineage. Furthermore, several CTX-M encoding plasmids were associated with serum survival of the strains, but less so with biofilm formation. Hence, both horizontal gene transfer and clonal expansion may contribute to the rapid and widespread distribution of blaCTX-M genes among E. coli populations in Ethiopian clinical settings. This information is relevant for local epidemiology and surveillance, but also for global understanding of the successful dissemination of AMR gene carrying plasmids.
Patients' preferences in therapeutic decision-making in digestive oncology: a single centre cross-sectional observational study
Authors: Nizet Pierre , Grivel Charlotte , Rabeau Pauline , Pecout Solange , Evin Adrien , Labarthe Sonia Prot , Navas Dominique , Feuillet Fanny , Bourdon Marianne , Huon Jean-François 
Published: May 2023

AbstractConsidering the preferences in Shared Decision Making (SDM) of patients with Digestive Cancer (DC) is crucial to ensure the quality of care. To date, there is limited information on preferences in SDM of patients with DC. The objectives of this study were to describe digestive cancer patients’ preference for involvement in therapeutic decision-making and to identify variables associated with these preferences. An observational prospective study in a French university cancer center has been conducted. Patients completed two questionnaires to qualify and quantify their preference for involvement in therapeutic decision-making: the Control Preference Scale (CPS) and the Autonomy Preference Index (API), which is composed of the Decision Making (DM) score and the Information Seeking (IS) score. Associations between these scores and socio-demographic data, disease-related data, coping strategies (Brief-COPE), physical (QLQ-C30) and psychological (HADS) quality of life were tested. One-hundred fifteen patients returned the questionnaires. The majority of patients reported a passive (49.1%) or a collaborative (43.0%) CPS status. The mean DM score was 39.4 Variables associated with decision-making preferences were occupational status and time since diagnosis. The identification of variables associated with patients' preferences for involvement in decision-making can help make clinicians aware of patients' needs and wishes. However, it can only be determined by interviewing the patient individually.
Variation in mouse chemical signals is genetically controlled and environmentally modulated
Authors: Stopková Romana , Matějková Tereza , Dodoková Alica , Talacko Pavel , Zacek Petr , Sedlacek Radislav , Piálek Jaroslav , Stopka Pavel 
Published: May 2023

AbstractIn most mammals and particularly in mice, chemical communication relies on the detection of ethologically relevant fitness-related cues from other individuals. In mice, urine is the primary source of these signals, so we employed proteomics and metabolomics to identify key components of chemical signalling. We show that there is a correspondence between urinary volatiles and proteins in the representation of genetic background, sex and environment in two house mouse subspecies Mus musculus musculus and M. m. domesticus. We found that environment has a strong influence upon proteomic and metabolomic variation and that volatile mixtures better represent males while females have surprisingly more sex-biased proteins. Using machine learning and combined-omics techniques, we identified mixtures of metabolites and proteins that are associated with biological features.
Respiration organizes gamma synchrony in the prefronto-thalamic network
Authors: Basha Diellor , Chauvette Sylvain , Sheroziya Maxim , Timofeev Igor 
Published: May 2023

AbstractMultiple cognitive operations are associated with the emergence of gamma oscillations in the medial prefrontal cortex (mPFC) although little is known about the mechanisms that control this rhythm. Using local field potential recordings from cats, we show that periodic bursts of gamma recur with 1 Hz regularity in the wake mPFC and are locked to the exhalation phase of the respiratory cycle. Respiration organizes long-range coherence in the gamma band between the mPFC and the nucleus reuniens the thalamus (Reu), linking the prefrontal cortex and the hippocampus. In vivo intracellular recordings of the mouse thalamus reveal that respiration timing is propagated by synaptic activity in Reu and likely underlies the emergence of gamma bursts in the prefrontal cortex. Our findings highlight breathing as an important substrate for long-range neuronal synchronization across the prefrontal circuit, a key network for cognitive operations.
Development of a machine learning-based clinical decision support system to predict clinical deterioration in patients visiting the emergency department
Authors: Choi Arom , Choi So Yeon , Chung Kyungsoo , Chung Hyun Soo , Song Taeyoung , Choi Byunghun , Kim Ji Hoon 
Published: May 2023

AbstractThis study aimed to develop a machine learning-based clinical decision support system for emergency departments based on the decision-making framework of physicians. We extracted 27 fixed and 93 observation features using data on vital signs, mental status, laboratory results, and electrocardiograms during emergency department stay. Outcomes included intubation, admission to the intensive care unit, inotrope or vasopressor administration, and in-hospital cardiac arrest. eXtreme gradient boosting algorithm was used to learn and predict each outcome. Specificity, sensitivity, precision, F1 score, area under the receiver operating characteristic curve (AUROC), and area under the precision-recall curve were assessed. We analyzed 303,345 patients with 4,787,121 input data, resampled into 24,148,958 1 h-units. The models displayed a discriminative ability to predict outcomes (AUROC > 0.9), and the model with lagging 6 and leading 0 displayed the highest value. The AUROC curve of in-hospital cardiac arrest had the smallest change, with increased lagging for all outcomes. With inotropic use, intubation, and intensive care unit admission, the range of AUROC curve change with the leading 6 was the highest according to different amounts of previous information (lagging). In this study, a human-centered approach to emulate the clinical decision-making process of emergency physicians has been adopted to enhance the use of the system. Machine learning-based clinical decision support systems customized according to clinical situations can help improve the quality of care.
Introducing machine learning model to response surface methodology for biosorption of methylene blue dye using Triticum aestivum biomass
Authors: Kumari Sheetal , Verma Anoop , Sharma Pinki , Agarwal Smriti , Rajput Vishnu D. , Minkina Tatiana , Rajput Priyadarshani , Singh Surendra Pal , Garg Manoj Chandra 
Published: May 2023

AbstractA major environmental problem on a global scale is the contamination of water by dyes, particularly from industrial effluents. Consequently, wastewater treatment from various industrial wastes is crucial to restoring environmental quality. Dye is an important class of organic pollutants that are considered harmful to both people and aquatic habitats. The textile industry has become more interested in agricultural-based adsorbents, particularly in adsorption. The biosorption of Methylene blue (MB) dye from aqueous solutions by the wheat straw (T. aestivum) biomass was evaluated in this study. The biosorption process parameters were optimized using the response surface methodology (RSM) approach with a face-centred central composite design (FCCCD). Using a 10 mg/L concentration MB dye, 1.5 mg of biomass, an initial pH of 6, and a contact time of 60 min at 25 °C, the maximum MB dye removal percentages (96%) were obtained. Artificial neural network (ANN) modelling techniques are also employed to stimulate and validate the process, and their efficacy and ability to predict the reaction (removal efficiency) were assessed. The existence of functional groups, which are important binding sites involved in the process of MB biosorption, was demonstrated using Fourier Transform Infrared Spectroscopy (FTIR) spectra. Moreover, a scan electron microscope (SEM) revealed that fresh, shiny particles had been absorbed on the surface of the T. aestivum following the biosorption procedure. The bio-removal of MB from wastewater effluents has been demonstrated to be possible using T. aestivum biomass as a biosorbent. It is also a promising biosorbent that is economical, environmentally friendly, biodegradable, and cost-effective.
Anisotropy of magnetic damping in Ta/CoFeB/MgO heterostructures
Authors: Rana Bivas , Otani YoshiChika 
Published: May 2023

AbstractMagnetic damping controls the performance and operational speed of many spintronics devices. Being a tensor quantity, the damping in magnetic thin films often shows anisotropic behavior with the magnetization orientation. Here, we have studied the anisotropy of damping in Ta/CoFeB/MgO heterostructures, deposited on thermally oxidized Si substrates, as a function of the orientation of magnetization. By performing ferromagnetic resonance (FMR) measurements based on spin pumping and inverse spin Hall effect (ISHE), we extract the damping parameter in those films and find that the anisotropy of damping contains four-fold and two-fold anisotropy terms. We infer that four-fold anisotropy originates from two-magnon scattering (TMS). By studying reference Ta/CoFeB/MgO films, deposited on LiNbO3 substrates, we find that the two-fold anisotropy is correlated with in-plane magnetic anisotropy (IMA) of the films, suggesting its origin as the anisotropy in bulk spin–orbit coupling (SOC) of CoFeB film. We conclude that when IMA is very small, it’s correlation with two-fold anisotropy cannot be experimentally identified. However, as IMA increases, it starts to show a correlation with two-fold anisotropy in damping. These results will be beneficial for designing future spintronics devices.