bluuebunny/crossref_metadata_2025_split huggingface dataset:
Pre-operative stereotactic radiosurgery and peri-operative dexamethasone for resectable brain metastases: a two-arm pilot study evaluating clinical outcomes and immunological correlates
Authors: Jansen Caroline S. , Pagadala Meghana S. , Cardenas Maria A. , Prabhu Roshan S. , Goyal Subir , Zhou Chengjing , Chappa Prasanthi , Vo BaoHan T. , Ye Chengyu , Hopkins Benjamin , Zhong Jim , Klie Adam , Daniels Taylor , Admassu Maedot , Green India , Pfister Neil T. , Neill Stewart G. , Switchenko Jeffrey M. , Prokhnevska Nataliya , Hoang Kimberly B. , Torres Mylin A. , Logan Suzanna , Olson Jeffrey J. , Nduom Edjah K. , del Balzo Luke , Patel Kirtesh , Burri Stuart H. , Asher Anthony L. , Wilkinson Scott , Lake Ross , Kesarwala Aparna H. , Higgins Kristin A. , Patel Pretesh , Dhere Vishal , Sowalsky Adam G. , Carter Hannah , Khan Mohammad K. , Kissick Haydn , Buchwald Zachary S. 
Published: October 2024

AbstractEnhancing the efficacy of immunotherapy in brain metastases (BrM) requires an improved understanding of the immune composition of BrM and how this is affected by radiation and dexamethasone. Our two-arm pilot study (NCT04895592) allocated 26 patients with BrM to either low (Arm A) or high (Arm B) dose peri-operative dexamethasone followed by pre-operative stereotactic radiosurgery (pSRS) and resection (n= 13 per arm). The primary endpoint, a safety analysis at 4 months, was met. The secondary clinical endpoints of overall survival, distant brain failure, leptomeningeal disease and local recurrence at 12-months were 66%, 37.3%, 6%, and 0% respectively and were not significantly different between arms (p= 0.7739, p= 0.3884, p= 0.3469). Immunological data from two large retrospective BrM datasets and confirmed by correlates from both arms of this pSRS prospective trial revealed that BrM CD8 T cells were composed of predominantly PD1+ TCF1+ stem-like and PD1+ TCF1-TIM3+ effector-like cells. Clustering of TCF1+ CD8 T cells with antigen presenting cells in immune niches was prognostic for local control, even without pSRS. Following pSRS, CD8 T cell and immune niche density were transiently reduced compared to untreated BrM, followed by a rebound 6+ days post pSRS with an increased frequency of TCF1- effector-like cells. In sum, pSRS is safe and therapeutically beneficial, and these data provide a framework for how pSRS may be leveraged to maximize intracranial CD8 T cell responses.
No universal mathematical model for thermal performance curves across traits and taxonomic groups
Authors: Kontopoulos Dimitrios - Georgios , Sentis Arnaud , Daufresne Martin , Glazman Natalia , Dell Anthony I. , Pawar Samraat 
Published: October 2024

AbstractIn ectotherms, the performance of physiological, ecological and life-history traits universally increases with temperature to a maximum before decreasing again. Identifying the most appropriate thermal performance model for a specific trait type has broad applications, from metabolic modelling at the cellular level to forecasting the effects of climate change on population, ecosystem and disease transmission dynamics. To date, numerous mathematical models have been designed, but a thorough comparison among them is lacking. In particular, we do not know if certain models consistently outperform others and how factors such as sampling resolution and trait or organismal identity influence model performance. To fill this knowledge gap, we compile 2,739 thermal performance datasets from diverse traits and taxa, to which we fit a comprehensive set of 83 existing mathematical models. We detect remarkable variation in model performance that is not primarily driven by sampling resolution, trait type, or taxonomic information. Our results reveal a surprising lack of well-defined scenarios in which certain models are more appropriate than others. To aid researchers in selecting the appropriate set of models for any given dataset or research objective, we derive a classification of the 83 models based on the average similarity of their fits.
The structure and statistics of language jointly shape cross-frequency neural dynamics during spoken language comprehension
Authors: Weissbart Hugo , Martin Andrea E. 
Published: October 2024

AbstractHumans excel at extracting structurally-determined meaning from speech despite inherent physical variability. This study explores the brain’s ability to predict and understand spoken language robustly. It investigates the relationship between structural and statistical language knowledge in brain dynamics, focusing on phase and amplitude modulation. Using syntactic features from constituent hierarchies and surface statistics from a transformer model as predictors of forward encoding models, we reconstructed cross-frequency neural dynamics from MEG data during audiobook listening. Our findings challenge a strict separation of linguistic structure and statistics in the brain, with both aiding neural signal reconstruction. Syntactic features have a more temporally spread impact, and both word entropy and the number of closing syntactic constituents are linked to the phase-amplitude coupling of neural dynamics, implying a role in temporal prediction and cortical oscillation alignment during speech processing. Our results indicate that structured and statistical information jointly shape neural dynamics during spoken language comprehension and suggest an integration process via a cross-frequency coupling mechanism.
Restoring protein glycosylation with GlycoShape
Authors: Ives Callum M. , Singh Ojas , D’Andrea Silvia , Fogarty Carl A. , Harbison Aoife M. , Satheesan Akash , Tropea Beatrice , Fadda Elisa 
Published: October 2024

AbstractDespite ground-breaking innovations in experimental structural biology and protein structure prediction techniques, capturing the structure of the glycans that functionalize proteins remains a challenge. Here we introduce GlycoShape (https://glycoshape.org), an open-access glycan structure database and toolbox designed to restore glycoproteins to their native and functional form in seconds. The GlycoShape database counts over 500 unique glycans so far, covering the human glycome and augmented by elements from a wide range of organisms, obtained from 1 ms of cumulative sampling from molecular dynamics simulations. These structures can be linked to proteins with a robust algorithm named Re-Glyco, directly compatible with structural data in open-access repositories, such as the Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) and AlphaFold Protein Structure Database, or own. The quality, performance and broad applicability of GlycoShape is demonstrated by its ability to predict N-glycosylation occupancy, scoring a 93% agreement with experiment, based on screening all proteins in the PDB with a corresponding glycoproteomics profile, for a total of 4,259 N-glycosylation sequons.
Resistance patterns, virulence determinants, and biofilm genes of multidrug-resistant Pseudomonas aeruginosa isolated from fish and fish handlers
Authors: Abou Elez Rasha M. M. , Zahra Eman Mohamed Fayek , Gharieb Rasha M. A. , Mohamed Mohamed Elsayed Mohamed , Samir Mohamed , Saad Alaaeldin Mohamed , Merwad Abdallah Mohamed Amin 
Published: October 2024

AbstractPseudomonas aeruginosa (P. aeruginosa) is an opportunistic bacterium that is widely distributed in aquatic environments and causes major economic losses in fish and public health hazards.This study aimed to identify the occurrence of P. aeruginosa in samples collected from fish and fish handlers, and to investigate the antimicrobial susceptibility, virulence determinants, and biofilm genes of P. aeruginosa isolates. A total of 276 samples were cross-sectionally collected from Nile tilapia (53), Golden grey mullet (52), Mediterranean horse mackerel (50), Striped red mullet (71), and fish handlers (50) at five different retail fish markets in Damietta Governorate, Egypt. Pseudomonas species (spp.) were biochemically identified in 57.9% of the total examined samples. Peudomonas aeruginosa were the most prevalent species isolated from the fish and human samples via PCR technique. Peudomonas aeruginosa isolates exhibited full resistance (100%) to tobramycin (TOB), gentamicin (CN), and colistin (CL), with a high level of susceptibility (88.5%) to imipenem (IPM) using the disk diffusion method. Most P. aeruginosa isolates (84.6%) exhibited drug resistance, with 61.5% were multidrug resistance (MDR) and 23.1% were extensive drug resistance (XDR). Most isolates had at least four virulence-associated genes (lasB, toxA, exoU, and oprL) and three biofilm genes (psIA, peIA, and lasR) by using uniplex PCR. The lasI, and rhlR Quorum Sensing (QS) genes were identified in 84.6% and 61.5% in the examined P. aeruginosa isolates, respectively. The highest mortality rate in Nile tilapia experimentally infected with P. aeruginosa isolate encoding most of virulent genes. Multivariate analyses revealed high heterogeneity among the examined isolates. This study revealed the emergence of virulent and drug resistant P. aeruginosa isolates in fish, poses high risks to consumers and food. Thus, strict hygienic measures should be considered when catching, handling, and storing fish, in addition to the routine application of antimicrobial susceptibility testing.
Privacy-friendly evaluation of patient data with secure multiparty computation in a European pilot study
Authors: Ballhausen Hendrik , Corradini Stefanie , Belka Claus , Bogdanov Dan , Boldrini Luca , Bono Francesco , Goelz Christian , Landry Guillaume , Panza Giulia , Parodi Katia , Talviste Riivo , Tran Huong Elena , Gambacorta Maria Antonietta , Marschner Sebastian 
Published: October 2024

AbstractIn multicentric studies, data sharing between institutions might negatively impact patient privacy or data security. An alternative is federated analysis by secure multiparty computation. This pilot study demonstrates an architecture and implementation addressing both technical challenges and legal difficulties in the particularly demanding setting of clinical research on cancer patients within the strict European regulation on patient privacy and data protection: 24 patients from LMU University Hospital in Munich, Germany, and 24 patients from Policlinico Universitario Fondazione Agostino Gemelli, Rome, Italy, were treated for adrenal gland metastasis with typically 40 Gy in 3 or 5 fractions of online-adaptive radiotherapy guided by real-time MR. High local control (21% complete remission, 27% partial remission, 40% stable disease) and low toxicity (73% reporting no toxicity) were observed. Median overall survival was 19 months. Federated analysis was found to improve clinical science through privacy-friendly evaluation of patient data in the European health data space.
Quantum bit with telecom wave-length emission from a simple defect in Si
Authors: Deák Peter , Li Song , Gali Adam 
Published: October 2024

AbstractDefect-related spin-to-photon interfaces in silicon promise the realization of quantum repeaters by combining advanced semiconductor and photonics technologies. Recently, controlled creation/erasure of simple carbon interstitial defects have been successfully realised in silicon. This defect has a stable structure near room temperature and coherently emits in the wave-length where the signal loss is minimal in optical fibres used in communication technologies. Our in-depth theoretical characterization confirms the assignment of the observed emission to the neutral charge state of this defect, as arising due to the recombination of a bound exciton. We also identified a metastable triplet state that could be applied as a quantum memory. Based on the analysis of the electronic structure of the defect and its similarities to a known optically detected magnetic resonance centre in silicon, we propose that a carbon interstitial can act as a quantum bit and may realize a spin-to-photon interface in complementary metal-oxide semiconductor-compatible platforms.
Deformed alluvial terraces record an excess of slip over the last few centuries on the Himalayan Topographic Frontal Thrust of central Bhutan
Authors: Gautier Maxime , Ferry Matthieu , Gautier Stéphanie , Le Roux-Mallouf Romain , Drukpa Dowchu , Cattin Rodolphe 
Published: October 2024

AbstractDeformed alluvial terraces are ubiquitous markers of a fault’s recent activity and may help assess its slip rate and associated seismic hazard. They are often considered as a nearly flat surface translated and rotated along a planar or listric fault. The present study challenges these assumptions by revealing uneven terrace treads and verticalization of the Topographic Frontal Thrust (TFT) in south-central Bhutan. We model this finding as combined variability in both the aggradation and geometry of the TFT. We estimate a Holocene slip rate of 19.6 ± 4.1 mm.yr−1, which confirms that the TFT accommodates most of the shortening across the range. Contrary to previous studies, we find an excess of slip over the last few centuries, which implies a lower seismic hazard. These results highlight the importance of considering the non-planar component in terrace shape, shallow abrupt changes in fault geometry, and aggradation in future morphotectonic studies worldwide.
An Articulatory Analysis of American English Rhotics in Children With and Without a History of Residual Speech Sound Disorder
Authors: Eads Amanda , Kabakoff Heather , King Hannah , Preston Jonathan L. , McAllister Tara 
Published: October 2024

Purpose:
This study investigated articulatory patterns for American English /ɹ/ in children with and without a history of residual speech sound disorder (RSSD). It was hypothesized that children without RSSD would favor bunched tongue shapes, similar to American adults reported in previous literature. Based on clinical cueing practices, it was hypothesized that children with RSSD might produce retroflex tongue shape patterns at a higher relative rate. Finally, it was hypothesized that, among children who use a mixture of bunched and retroflex shapes, phonetic context would impact tongue shape as reported in the adult literature.

Method:
These hypotheses were tested using ultrasound data from a stimulability task eliciting /ɹ/ in syllabic, postvocalic, and onset contexts. Participants were two groups of children/adolescents aged 9–15 years: 36 with RSSD who completed a study of ultrasound biofeedback treatment and 33 with no history of RSSD. Tongue shapes were qualitatively coded as bunched or retroflex using a flowchart from previous research.

Results:
Children with no history of RSSD were found to use bunched-only tongue shape patterns at a rate higher than adults, but those who used a mixture of shapes for /ɹ/ followed the expected phonetic contextual patterning. Children with RSSD were found to use retroflex-only patterns at a substantially higher rate than adults, and those using a mixture of shapes did not exhibit the expected patterning by phonetic context.

Conclusions:
These findings suggest that clients receiving ultrasound biofeedback treatment for /ɹ/ may be most responsive to clinician cueing of retroflex shapes, at least early on. However, retroflex-only cueing may be a limiting and insufficient strategy, particularly in light of our finding of a lack of typical variation across phonetic contexts in children with remediated /ɹ/. Future research should more specifically track cueing strategies to better understand the relationship between clinician cues, tongue shapes, and generalization across a range of contexts.

Supplemental Material:

https://doi.org/10.23641/asha.26801050
An adaptive EKF‐SLAM algorithm for cooperative navigation of multi‐aircrafts
Authors: Chen Wei , Jiang Shan , Cao Jiarong , Sun Ruisheng 
Published: October 2024

AbstractAiming at cooperative navigation of multi‐aircrafts, an adaptive EKF‐SLAM algorithm for non‐fixed landmark is proposed. First, the aircraft motion model and angle measurement model are established. Second, the fixed landmark cooperative EKF‐SLAM algorithm is established. Furthermore, a distributed EKF‐SLAM algorithm is designed. Then, the adaptive EKF‐SLAM algorithm with non‐fixed landmark is proposed. Finally, simulation results verify the effectiveness of the proposed algorithm.
Frequency domain attention network for copper chain defect detection in tobacco cutting machine
Authors: Lu Hongbo , Cao Yuanyuan , Huang Jiang , Yao Qingfeng , Cao Jiasheng , Sun Siyuan 
Published: October 2024

AbstractThe detection of defects on the copper chain in the production process of tobacco cutters is crucial for ensuring product quality. Traditional defect detection methods often rely on spatial domain image analysis, which not only has a large computational load but also performs poorly in handling high‐frequency noise and complex backgrounds. To address this issue, this paper proposes a novel neural network model based on frequency domain analysis, called frequency domain attention network. This network first utilizes discrete cosine transform to transform the image from the spatial domain to the frequency domain, effectively reducing computational complexity and improving processing speed. Subsequently, through the innovative frequency domain attention module, the network automatically identifies and enhances key discriminative features in the frequency domain, thereby strengthening the model's ability to identify defects. Finally, the frequency domain attention map, after feature extraction and integration, is inputted into the coupling detection head to achieve high‐precision defect detection. The experimental results show that our method outperforms the SOTA method with an increase of 0.03 in AP and 21 in FPS.
Radar waveform generative design method
Authors: Hu Yuhao , Hu Weidong , Du Xiaoyong , Lei Gang 
Published: October 2024

AbstractTo address the issue of radar detection performance degradation caused by interference in complex electromagnetic environments, this paper proposes a generative waveform design method and demonstrates its advantages. This method fully exploits waveform degrees of freedom to achieve a larger design space, generating a multitude of agile waveform parameters within the constraint envelope through algorithmic processes. This approach enables the radar to maintain detection performance in complex electromagnetic environments. Compared with the traditional waveform design method, the simulation experiment verifies the effectiveness of the generative waveform design method.
Improving protection reliability of series‐compensated transmission lines by a fault detection method through an ML‐based model
Authors: Ebrahimi Hossein , Golshannavaz Sajjad , Yazdaninejadi Amin , Pouresmaeil Edris 
Published: October 2024

AbstractThis article addresses the distance protection challenges associated with the series‐compensated transmission lines and the impact of fault resistance by employing a machine‐learning model. In the proposed model, stacked layers of bidirectional long short‐term memory (Bi‐LSTM) cells are fed by voltage and current signals to distinguish between different fault scenarios. This method takes advantage of only local bus measurements to prevent information leakage in communication channels. Moreover, to make the proposed method harmonics‐robust and improve the correlation interpretation between the features for the Bi‐LSTM model, the 3‐phase raw measurement signals are passed through a discrete Fourier transform (DFT) which extracts their fundamental frequency component magnitudes and angles. Then, an extensive amount of fault scenarios including different compensation levels, fault resistances, and fault locations in normal and power‐swing operational conditions are simulated to train the model. Finally, to validate the performance of the proposed protection method in the series‐compensated transmission lines, distinctive studies are also carried out based on electromagnetic transient simulations. The obtained results confirm the remarkable performance of the proposed method in discriminating fault types, faulty phases, internal or external faults, and normal or power‐swing conditions of the power system.
Multi‐domain pseudo‐reference quality evaluation for infrared and visible image fusion
Authors: Meng Xiangchao , Chen Chaoqi , Liu Qiang , Shao Feng 
Published: October 2024

AbstractInfrared and visible image fusion involves merging the advantages of infrared and visible images to generate a composite image that encompasses thermal radiation as well as intricate texture details. Infrared and visible image fusion has garnered increasing attention, with numerous fusion methods proposed. However, how to fairly perceive the performance of fused image remains a contentious topic. This paper is dedicated to solving this problem from two perspectives (e.g., subjective and objective aspects). Firstly, an infrared and visible fusion image quality assessment dataset was constructed, including 60 pairs of infrared and visible images captured in various scenes, along with 540 fusion images with different types and degrees of distortions. Additionally, a subjective evaluation dataset of 16,200 subjective scores by 30 participants was further provided for the fused image. Secondly, to overcome the challenging assessment for infrared and visible fusion images without a real reference image, an interesting multi‐domain pseudo‐reference image quality assessment model (MPIQAM) is proposed, by comprehensively considering the thermal radiation information distortion, texture information distortion, and overall naturalness of the fused image. The proposed MPIQAM was compared with 18 mainstream objective metrics, and the experimental findings showcased a commendable level of competitiveness.