bluuebunny/crossref_metadata_2025_split huggingface dataset:
Facile pore size control and low-cost synthesis of mesoporous silica nanoparticles based on rice husk
Authors: Rumiyanti Leni , Destiana Catur , Oktaviani Ria , Syafriadi  , Marjunus Roniyus , Chotimah  , Suharyadi Edi 
Published: March 2023

Abstract
We design silica from rice husk as a precursor for mesoporous silica nanoparticles (MSN), which is eco-friendly, low-cost, and abundant in availability, replacing tetraethyl orthosilicate, which is expensive and its vapours cause blindness, by the facile method, i.e., sol-gel. The different pore sizes of MSN have been successfully reached by tuning the synthesis conditions of surfactant concentrations and hydrothermal treatment temperatures. The smallest pore size of MSN is 2.62 nm, with the most significant surface area of 19.169 m2/g. The higher surfactant concentrations affect the decrease of particle size of MSN, but the higher hydrothermal treatment temperatures affect the opposite. In addition, these factors affect the morphology, the graph of isotherm, and the atomic elements of MSN. Thus, the resulting MSN will be applied to nanocontainers of corrosion inhibitor because of getting the small pore size.
Graphene-black phosphorus printed photodetectors
Authors: Akhavan S , Ruocco A , Soavi G , Taheri Najafabadi A , Mignuzzi S , Doukas S , Cadore A R , Samad Y A K , Lombardi L , Dimos K , Paradisanos I , Muench J E , Watson H F Y , Hodge S , Occhipinti L G , Lidorikis E , Goykhman I , Ferrari A C 
Published: March 2023

Abstract
Layered materials (LMs) produced by liquid phase exfoliation (LPE) can be used as building blocks for optoelectronic applications. However, when compared with mechanically exfoliated flakes, or films prepared by chemical vapor deposition (CVD), LPE-based printed optoelectronic devices are limited by mobility, defects and trap states. Here, we present a scalable fabrication technique combining CVD with LPE LMs to overcome such limitations. We use black phosphorus inks, inkjet-printed on graphene on Si/SiO2, patterned by inkjet printing based lithography, and source and drain electrodes printed with an Ag ink, to prepare photodetectors (PDs). These have an external responsivity (R
ext)∼337 A W−1 at 488 nm, and operate from visible (∼488 nm) to short-wave infrared (∼2.7 µm, R

ext

∼

48 mA W−1). We also use this approach to fabricate flexible PDs on polyester fabric, one of the most common used in textiles, achieving R

ext

∼

6 mA W−1 at 488 nm for an operating voltage of 1 V. Thus, our combination of scalable CVD and LPE techniques via inkjet printing is promising for wearable and flexible applications.
Abnormal grain growth under solution-aging treatments enables convergence mechanical properties of a Fe-Ni-Cr based austenitic alloy
Authors: Li Jina , Su Jie , Liu Geng , Ding Yali , Wang Ao , Yu Linran 
Published: March 2023

Abstract
In this study, systematic heat treatment routes including solution (980 °C to 1130 °C) and aging (675 °C to 775 °C) processes were used to tailor the microstructural evolution and mechanical performance of a Fe-Ni-Cr based austenitic alloy, strengthened by a γ′ phase (Ni3(Ti, Al)). Grain growth was observed with increasing solution treatment temperature from nearly 90 μm (980 °C) to nearly 200 μm (1130 °C). Grain refinement during solution heat processes was found to ascribe to the solute drag effect and the pinning effect of nickel-titanium-enriched segregates and precipitates. During aging, the precipitation behavior of γ′ is found to be almost independent of solution treatment temperatures. Interestingly, abnormal grain growth during aging was observed. The motion of grain boundaries was ascribed to the formation of nickel-titanium-enriched γ′ in the austenitic matrix, thereby contributing to the dissolution of the previously enriched segregates and precipitates from grain boundaries. The studied alloy shows a wide range of mechanical properties, from tensile strength of 1131 MPa with ductility at 36%, to tensile strength of 880 MPa with ductility at 50%. The current study demonstrates that grain refinement of the alloy at solution treatment may not benefit the final mechanical properties.
The development of a high-efficiency aquaculture water pump using self-adhesive electrical steel
Authors: Chen Guan-Ming , Huang Ching-Chien , Huang Chien-Ming , Chi Yu-Lin 
Published: March 2023

Abstract
Traditional water pump use AC motor combines with gearbox to achieve high torque and low speed to protect fish form injury by blades, which will shorten the life of waterwheel. Besides, the efficiency of the gearbox is about 40 ∼ 50%, resulting in low efficiency of whole system, and translated into poor reliability. The waterwheel in this study uses surface permanent magnet (SPM) motor instead of AC motor. However, the design of conventional waterwheel PM motor has the following drawbacks: (a) the slot fill factor cannot be too low; (b) the spacing between the rotor magnet grooves is too large, which affect the efficiency of the motor. To improve the motor efficiency without changing the shape of the stator core, this study developed an assembled stator core to improve the slot fill rate of motor winding. However, if the stack length of the stator core is too high, there will be a problem of core breakage. Therefore, this study introduced the self-adhesive steel to develop a self-adhesive assembled stator core to improve the breakage situation, and also to take advantage of the higher slot fill rate of the assembled core. Furthermore, in order to solve the problem of large spacing between the rotor magnet grooves, we optimize the magnetic circuit design by using simulation to improve the motor performance, such as magnet size, slot opening size, etc, to make the back electromotive force waveform as a sine wave. In addition, this design also reduces the thickness of magnets to reduce the cogging torque of the motor, and effectively reduces magnet usage to reduce the cost. As a result, this study developed a high-efficiency waterwheel SPM motor about 86.32% at 123 rpm, by using self-adhesive assembled stator core to increase the slot fill factor. The overall efficiency of system reaches about 78.72%.
Comment on: ‘Experimental indications of non-classical brain function’ 2022 Journal of Physics Communications
6 105001
Authors: Warren Warren S 
Published: March 2023

Abstract
A recent paper in this journal presents magnetic resonance imaging (MRI) data on humans which are asserted to ‘suggest that we may have witnessed entanglement mediated by consciousness-related brain functions. Those brain functions must then operate non-classically, which would mean that consciousness is non-classical.’ Unfortunately, the article provides no evidence to justify this claim. In fact, the paper only provides evidence for what we already knew: the brain (and any other living tissue) is complex, multicompartmental, and imprecisely characterized by MRI.
An observation-based method to assess tropical stratocumulus and shallow cumulus clouds and feedbacks in CMIP6 and CMIP5 models
Authors: Cesana G V , Ackerman A S , Črnivec N , Pincus R , Chepfer H 
Published: March 2023

Abstract
In the Earth system models (ESMs) participating in the Coupled Models Intercomparison Project phase 6 (CMIP6), the tropical low-cloud feedback is 50% more positive than its predecessors (CMIP5) and continues to dominate the spread in simulated climate sensitivity. In the context of recent studies reporting larger feedbacks for stratocumulus (Sc) than shallow cumulus (Cu) clouds, it appears crucial to faithfully represent the geographical extent of each cloud type to simulate realistic low-cloud feedbacks. Here we use a novel observation-based method to distinguish Sc and Cu clouds together with satellite data from Cloud-Aerosol Lidar and Infrared Pathfinder Satellite Observations (CALIPSO) and Clouds and the Earth’s Radiant Energy System (CERES) to evaluate Sc and Cu cloud fractions, cloud radiative effects and cloud feedbacks in the two latest generations of CMIP ESMs. Overall, the CMIP6 models perform better than the CMIP5 models in most aspects considered here, indicating progress. Yet the ensemble mean continues to underestimate the marine tropical low-cloud fraction, mostly attributable to Sc. Decomposition of the bias reveals that the Sc-regime cloud fraction is better represented in CMIP6, although Sc regimes occur too infrequently—even less frequently than in CMIP5. Building on our Sc and Cu discrimination method, we demonstrate that CMIP6 models also simulate more realistic low-cloud feedbacks than CMIP5 models, especially the Sc component. Finally, our results suggest that part of the CMIP6 low-cloud feedback increase can be traced back to greater cloud fraction in Sc-dominated regions.
A generative adversarial network to speed up optical Monte Carlo simulations
Authors: Trigila Carlotta , Srikanth Anirudh , Roncali Emilie 
Published: March 2023

Abstract
Detailed simulation of optical photon transport and detection in radiation detectors is often used for crystal-based gamma detector optimization. However, the time and memory burden associated with the track-wise approach to particle transport and detection in commonly used Monte Carlo codes makes optical simulation prohibitive at a system level, where hundreds to thousands of scintillators must be modeled. Consequently, current large system simulations do not include detailed detector models to analyze the potential performance gain with new radiation detector technologies. Generative adversarial networks (GANs) are explored as a tool to speed up the optical simulation of crystal-based detectors. These networks learn training datasets made of high-dimensional data distributions. Once trained, the resulting model can produce distributions belonging to the training data probability distribution. In this work, we present the proof of concept of using a GAN to enable high-fidelity optical simulations of nuclear medicine systems, mitigating their computational complexity. The architecture of the first network version and high-fidelity training dataset is discussed. The latter is generated through accurate optical simulation with GATE/Geant4, and contains the position, direction, and energy distributions of the optical photons emitted by 511 keV gamma rays in bismuth germanate and detected on the photodetector face. We compare the GAN and simulation-generated distributions in terms of similarity using the Jensen–Shannon distance. Excellent agreement was found with similarity values higher than 93.5% for all distributions. Moreover, the GAN speeded the optical photon distribution generation by up to two orders of magnitude. These very promising results have the potential to drastically change the use of nuclear imaging system optical simulations by enabling high-fidelity system-level simulations in reasonable computation times. The ultimate is to integrate the GAN within GATE/Geant4 since numerous applications (large detectors, bright scintillators, Cerenkov-based timing positron emission tomography) can benefit from these improvements.
Benchmark of embedding-based methods for accurate and transferable prediction of drug response
Authors: Jia Peilin , Hu Ruifeng , Zhao Zhongming 
Published: March 2023

Abstract
Prediction of therapy response has been a major challenge in cancer precision medicine due to the extensive tumor heterogeneity. Recently, several deep learning methods have been developed to predict drug response by utilizing various omics data. Most of them train models by using the drug-response screening data generated from cell lines and then use these models to predict response in cancer patient data. In this study, we focus on and evaluate deep learning methods using transcriptome data for the long-standing question of personalized drug-response prediction. We developed an embedding-based approach for drug-response prediction and benchmarked similar methods for their performance. For all methods, we used pretreatment transcriptome data to train models and then conducted a comprehensive evaluation and comparison of the models using cross-panels, cross-datasets and target genes. We further validated the methods using three independent datasets assessing multiple compounds for their predictive capability of drug response, survival outcome and cell line status. As a result, the methods building on gene embeddings had an overall competitive performance with reduced overfitting when we applied evaluation parameters for model fitting as well as the correlation with clinical outcomes in the validation data. We further developed an ensemble model to combine the results from the three most competitive methods for an overall prediction. Finally, we developed DrVAEN (https://bioinfo.uth.edu/drvaen), a user-friendly and easy-accessible web-server that hosts all these methods for drug-response prediction and model comparison for broad use in cancer research, method evaluation and drug development.
rcCAE: a convolutional autoencoder method for detecting intra-tumor heterogeneity and single-cell copy number alterations
Authors: Yu Zhenhua , Liu Furui , Shi Fangyuan , Du Fang 
Published: March 2023

Abstract
Intra-tumor heterogeneity (ITH) is one of the major confounding factors that result in cancer relapse, and deciphering ITH is essential for personalized therapy. Single-cell DNA sequencing (scDNA-seq) now enables profiling of single-cell copy number alterations (CNAs) and thus aids in high-resolution inference of ITH. Here, we introduce an integrated framework called rcCAE to accurately infer cell subpopulations and single-cell CNAs from scDNA-seq data. A convolutional autoencoder (CAE) is employed in rcCAE to learn latent representation of the cells as well as distill copy number information from noisy read counts data. This unsupervised representation learning via the CAE model makes it convenient to accurately cluster cells over the low-dimensional latent space, and detect single-cell CNAs from enhanced read counts data. Extensive performance evaluations on simulated datasets show that rcCAE outperforms the existing CNA calling methods, and is highly effective in inferring clonal architecture. Furthermore, evaluations of rcCAE on two real datasets demonstrate that it is able to provide a more refined clonal structure, of which some details are lost in clonal inference based on integer copy numbers.
nf-core/isoseq: simple gene and isoform annotation with PacBio Iso-Seq long-read sequencing
Authors: Guizard Sébastien , Miedzinska Katarzyna , Smith Jacqueline , Smith Jonathan , Kuo Richard I , Davey Megan , Archibald Alan , Watson Mick 
Published: March 2023

Abstract

Motivation
Iso-Seq RNA long-read sequencing enables the identification of full-length transcripts and isoforms, removing the need for complex analysis such as transcriptome assembly. However, the raw sequencing data need to be processed in a series of steps before annotation is complete. Here, we present nf-core/isoseq, a pipeline for automatic read processing and genome annotation. Following nf-core guidelines, the pipeline has few dependencies and can be run on any of platforms.

Availability and implementation
The pipeline is freely available online on the nf-core website (https://nf-co.re/isoseq) and on GitHub (https://github.com/nf-core/isoseq) under MIT License (DOI: 10.5281/zenodo.7116979).
Adaptive control of functional connectivity: dorsal and ventral limbic divisions regulate the dorsal and ventral neocortical networks
Authors: Tucker Don M , Luu Phan 
Published: March 2023

Abstract
The connectional anatomy of the primate cortex is now well-defined by the Structural Model, in which adjacent cortical areas are interconnected in an organized network hierarchy of communication and control. The computational theory of “active inference” can be aligned with this architecture, proposing that predictions descend from higher association areas to be updated by ascending prediction errors from lower (i.e. primary) sensory and motor areas. Given the connectivity, the limbic networks at the apex of the cerebral hierarchy must then be responsible for the most general expectancies, which are propagated through the hierarchy to organize the multiple component network levels of experience and behavior. Anatomical evidence suggests that there are dual limbic divisions, reflecting archicortical (dorsal) and paleocortical (ventral) derivations, resulting in fundamentally different neural mechanisms for managing expectancies across the corticolimbic hierarchy. In the functional connectivity literature, the dorsal attention network is seen to provide top-down or endogenous control of attention, whereas the ventral attention network provides stimulus bound or exogenous attentional control. We review evidence indicating that the dorsal, archicortical division of the limbic system provides a feedforward, impulsive, endogenous mode of motive control, whereas the ventral, paleocortical limbic division provides feedback constraint linked to exogenous events.
Exercise Perceptions and Experiences in Adults With Crohn’s Disease Following a Combined Impact and Resistance Training Program: A Qualitative Study
Authors: Jones Katherine , Naisby Jenni , Baker Katherine , Tew Garry A 
Published: March 2023

AbstractBackgroundExercise is increasingly being recognized to counteract specific complications of Crohn’s disease (CD). The aim of this study was to explore exercise experiences and perceptions after engaging in a combined impact and resistance training program, involving both intervention and control group viewpoints.MethodsSemistructured telephone interviews, involving a convenience sample of participants with CD (n = 41; aged 49.1 ± 12 years) were undertaken up to 6 weeks following completion of the program. Data were analyzed using thematic analysis.ResultsFour overarching themes emerged, along with 11 subthemes: (1) Lack of confidence and knowledge, fears surrounding physical ability and symptoms, coupled with issues not addressed as part of the healthcare pathway played a part in transitioning to inactivity; (2) Improvements in strength, mental well-being, physical fitness, fatigue, abdominal and joint pain, comorbidities, and self-management strategies were among the reported benefits of exercise participation; (3) Seeing progress, goal setting, enjoyment, and a peer-led program receiving support and advice increased motivation. Whereas work-related tiredness, other commitments, and self-directed exercise were reported as exercise barriers; (4) The intervention design was well received and the journey from start to finish was positively discussed, important considerations for future interventions and implementation strategies.ConclusionsThe study yielded novel perceptions on the transition to inactivity following receiving a diagnosis, physical and psychological benefits accruing from the intervention, and views on program design. Information that will provide an essential step in the development of implementing exercise guidelines into the clinical pathway and supporting individuals with self-management options.
The intersection of bee and flower sexes: pollen presence shapes sex-specific bee foraging associations in sunflower
Authors: Roch Justin C , Malfi Rosemary , Van Wyk Jennifer I , Muñoz Agudelo Deicy Carolina , Milam Joan , Adler Lynn S 
Published: March 2023

Abstract
Foraging preferences are known to differ among bee taxa, and can also differ between male and female bees of the same species. Similarly, bees can prefer a specific flower sex, particularly if only one sex provides pollen. Such variation in foraging preferences could lead to divergent bee communities visiting different flower sexes of a plant species. We sampled bees visiting sunflowers to characterize bee species richness, abundance, and sex ratios on pollen-fertile and pollen-sterile cultivars. We asked whether female or male bees were more abundant on sunflowers, whether female bees were more abundant on pollen-fertile or pollen-sterile cultivars, and whether pollen presence predicted the sex of sampled bees. We further asked whether the bee community differed between pollen-fertile and pollen-sterile cultivars. Females of most bee species were more abundant on sunflowers compared to males, and females were usually more abundant on pollen-fertile cultivars. In three bee species, pollen presence was predictive of a bee’s sex, with females more abundant on pollen-fertile cultivars than males. Further, the bee community differed significantly between pollen-fertile and pollen-sterile cultivars, with two bee species functioning as indicators for pollen-fertile sunflowers. Our results demonstrate that a bee’s sex shapes foraging associations on sunflowers and influences abundance between pollen-fertile and pollen-sterile cultivars, and that pollen-fertile and pollen-sterile cultivars are visited by different bee communities. Bee sexes and flower pollen presence may be under-appreciated factors shaping pollination services in both agricultural and natural ecosystems, and could be important considerations for pollination of crops with pollen-fertile and pollen-sterile flowers.
The Ross procedure versus repair for treatment of a unicuspid aortic valve in adults
Authors: Abeln Karen B , Matsushima Shunsuke , Ehrlich Tristan , Giebels Christian , Schäfers Hans-Joachim 
Published: March 2023

Abstract

OBJECTIVES
Aortic stenosis or regurgitation in patients with a unicuspid valve morphology requires interventions early in life. We have performed either primary valve repair or the Ross procedure. The goal of this study was to compare the midterm results of repair and pulmonary autograft replacement.

METHODS
Between December 1998 and April 2022, a total of 345 patients (77% male; mean age 34 ± 9.7 years) underwent treatment of a unicuspid aortic valve. Patients were excluded if they were &lt;18 years (n = 84) or &gt;54 years (n = 3) at the time of the operation. The remaining cohort was divided into 2 groups: 167 (64%) patients underwent valve repair; 91 (36%) patients underwent pulmonary autograft replacement.
The indications for surgery were aortic regurgitation (n = 104), aortic stenosis (n = 45), combined disease (n = 103) and endocarditis (n = 6). Fifty-one patients had root dilatation (&gt;43 mm) with aortic regurgitation (repair n = 23; Ross n = 28). Mean follow-up was 5.9 years (SD: 5 years) [range 0.1–22.3 years].

RESULTS
There were 1 early and 3 late deaths; 47 patients required reintervention. Survival at 10 years was 95% in the Ross group and 97% after valve repair (P = 0.769). Freedom from reintervention at 10 years was 98% in the Ross group and 80% after valve repair (P = 0.012). A receiver operating characteristics curve analysis showed a trend towards better durability in patients &lt; 26 years.

CONCLUSIONS
The ideal treatment of the unicuspid aortic valve remains debatable. Repair of a unicuspid valve can be considered a bridge to pulmonary autograft replacement, at least in younger patients. The appropriate times to replace and to repair require further investigation.