bluuebunny/crossref_metadata_2025_split huggingface dataset:
Unveiling the cell-type-specific landscape of cellular senescence through single-cell transcriptomics using SenePy
Authors: Sanborn Mark A. , Wang Xinge , Gao Shang , Dai Yang , Rehman Jalees 
Published: February 2025

Abstract
Senescent cells accumulate in most tissues with organismal aging, exposure to stressors, or disease progression. It is challenging to identify senescent cells because cellular senescence signatures and phenotypes vary widely across distinct cell types and tissues. Here we developed an analytical algorithm that defines cell-type-specific and universal signatures of cellular senescence across a wide range of cell types and tissues. We utilize 72 mouse and 64 human weighted single-cell transcriptomic signatures of cellular senescence to create the SenePy scoring platform. SenePy signatures better recapitulate in vivo cellular senescence than signatures derived from in vitro senescence studies. We use SenePy to map the kinetics of senescent cell accumulation in healthy aging as well as multiple disease contexts, including tumorigenesis, inflammation, and myocardial infarction. SenePy characterizes cell-type-specific in vivo cellular senescence and could lead to the identification of genes that serve as mediators of cellular senescence and disease progression.
Identifying signatures of past and present cryovolcanism on Europa
Authors: Lesage Elodie , Howell Samuel M. , Neveu Marc , Miller Julia W. , Naseem Mariam , Melwani Daswani Mohit , Villette Justine , Vance Steven D. 
Published: February 2025

Abstract
Europa, the most visibly active icy moon of Jupiter, is a prime target for the search for life in the outer solar system. Two spacecraft missions, Europa Clipper from the National Aeronautics and Space Administration (NASA) and the Jupiter Icy Moon Explorer (JUICE) from the European Space Agency (ESA), will observe its surface, probe its interior structure, and characterize the space environment starting in 2030. Occasional eruptions of water sourced from Europa’s interior may provide a window on the interior conditions and habitability of the moon. Here, we investigate the storage and evolution of briny water in Europa’s ice shell and propose a framework to interpret spectral, thermal, radar and gravity data collected by future missions. We show that it is possible to discriminate between water erupting from the deep ocean or from shallow liquid reservoirs using combined measurements of the material’s salinity, surface temperature and ice shell thickness.
Phage parasites targeting phage homologous recombinases provide antiviral immunity
Authors: Debiasi-Anders Gianluca , Qiao Cuncun , Salim Amrita , Li Na , Mir-Sanchis Ignacio 
Published: February 2025

Abstract
Bacteria often carry multiple genes encoding anti-phage defense systems, clustered in defense islands and phage satellites. Various unrelated anti-phage defense systems target phage-encoded homologous recombinases (HRs) through unclear mechanisms. Here, we show that the phage satellite SaPI2, which does not encode orthodox anti-phage defense systems, provides antiviral immunity mediated by Stl2, the SaPI2-encoded transcriptional repressor. Stl2 targets and inhibits phage-encoded HRs, including Sak and Sak4, two HRs from the Rad52-like and Rad51-like superfamilies. Remarkably, apo Stl2 forms a collar of dimers oligomerizing as closed rings and as filaments, mimicking the quaternary structure of its targets. Stl2 decorates both Sak rings and Sak4 filaments. The oligomerization of Stl2 as a collar of dimers is necessary for its inhibitory activity both in vitro and in vivo. Our results shed light on the mechanisms underlying antiviral immunity against phages carrying divergent HRs.
Low-temperature pressure-assisted liquid-metal printing for β-Ga2O3 thin-film transistors
Authors: Huang Chi-Hsin , Cyu Ruei-Hong , Chueh Yu-Lun , Nomura Kenji 
Published: February 2025

Abstract
Developing a low-temperature and cost-effective manufacturing process for energy-efficient and high-performance oxide-thin-film transistors (TFTs) is a crucial step toward advancing next-generation device applications such as wearable and flexible electronics. Among several methods, a liquid-metal printing technique is considered a promising, cost-effective oxide semiconductor process due to its inherent advantages, such as vacuum-free, low-thermal budget, high throughput, and scalability. In this study, we have developed a pressure-assisted liquid-metal printing technique enabling the low-temperature synthesis of polycrystalline wide bandgap n-channel oxide-TFTs. The n-channel oxide TFTs based on ~3 nm-thick β-Ga2O3 channels exhibited good TFT switching properties with a threshold voltage of ~3.8 V, a saturation mobility of ~11.7 cm2 V−1 s−1, an on/off-current ratio of ~109, and a subthreshold slope of ~163 mV/decade. We also observed p-channel operation in the off-stoichiometric GaOx channels fabricated at high-pressure conditions. Toward oxide-based circuit applications, we developed high-performance oxide-TFT-based inverters. While our approach can promote the advancement of low-temperature manufacturing for oxide TFT technology, further work will be necessary to confirm the role of the applied pressure in the β-Ga2O3 crystallization process.
Independent and joint effects of genomic and exposomic loads for schizophrenia on psychotic experiences in adolescents of European ancestry
Authors: Di Vincenzo Matteo , Prachason Thanavadee , Sampogna Gaia , Arias-Magnasco Angelo , Lin Bochao Danae , Pries Lotta-Katrin , van Os Jim , Rutten Bart P. F. , Barzilay Ran , Fiorillo Andrea , Guloksuz Sinan 
Published: February 2025

Abstract
This study aimed to assess the independent and joint associations of genomic and exposomic liabilities for schizophrenia with distressing psychotic experiences (PEs) and their persistence in early adolescence. The Adolescent Brain and Cognitive Development Study data from children with European ancestry were used (N = 5122). The primary outcome was past-month distressing PEs at the 3-year follow-up. Secondary outcomes were distressing PEs at varying cutoffs of persistence. Multilevel logistic regression models were used to test the associations of binary modes (>75th percentile) of polygenic risk score for schizophrenia (PRS-SCZ75) and exposome score for schizophrenia (ES-SCZ75) on the outcomes. Relative excess risk due to interaction (RERI) calculation indicated additive interaction. When analyzed independently, PRS-SCZ75 was not significantly associated with past-month distressing PEs but with lifetime (OR 1.29 [95% CI 1.08, 1.53]) and repeating distressing PEs ≥2 waves (OR 1.34 [95% CI 1.08, 1.65]); whereas, ES-SCZ75 was consistently associated with all outcomes, with increasing strength of association as a function of PEs persistence (one wave: OR 2.77 [95% CI 2.31, 3.31]; two waves: OR 3.16 [95% CI 2.54, 3.93]; three waves: OR 3.93 [95% CI 2.86, 5.40]; four waves: OR 3.65 [95% CI 2.34, 5.70]). When considered jointly, ES-SCZ75 and PRS-SCZ75 did not additively interact to predict past-month distressing PEs but showed significant additive interactions for lifetime (RERI = 1.26 [95%CI 0.14, 2.38]) and repeating distressing PEs ≥2 waves (RERI = 1.79 [95%CI 0.35, 3.23]). Genomic and exposomic liabilities for schizophrenia were independently and jointly associated with distressing PEs and their persistence in early adolescence.
MORE-Q, a dataset for molecular olfactorial receptor engineering by quantum mechanics
Authors: Chen Li , Medrano Sandonas Leonardo , Traber Philipp , Dianat Arezoo , Tverdokhleb Nina , Hurevich Mattan , Yitzchaik Shlomo , Gutierrez Rafael , Croy Alexander , Cuniberti Gianaurelio 
Published: February 2025

Abstract
We introduce the MORE-Q dataset, a quantum-mechanical (QM) dataset encompassing the structural and electronic data of non-covalent molecular sensors formed by combining 18 mucin-derived olfactorial receptors with 102 body odor volatilome (BOV) molecules. To have a better understanding of their intra- and inter-molecular interactions, we have performed accurate QM calculations in different stages of the sensor design and, accordingly, MORE-Q splits into three subsets: i) MORE-Q-G1: QM data of 18 receptors and 102 BOV molecules, ii) MORE-Q-G2: QM data of 23,838 BOV-receptor configurations, and iii) MORE-Q-G3: QM data of 1,836 BOV-receptor-graphene systems. Each subset involves geometries optimized using GFN2-xTB with D4 dispersion correction and up to 39 physicochemical properties, including global and local properties as well as binding features, all computed at the tightly converged PBE+D3 level of theory. By addressing BOV-receptor-graphene systems from a QM perspective, MORE-Q can serve as a benchmark dataset for state-of-the-art machine learning methods developed to predict binding features. This, in turn, can provide valuable insights for developing the next-generation mucin-derived olfactory receptor sensing devices.
In-Depth Analysis of Tram Curve Noise Dataset for Rigorous Noise Assessment
Authors: Kaewunruen Sakdirat , Khairul Anuar Mohamad Ali Ridho Bin , Huang Junhui , Liu Hao 
Published: February 2025

Abstract
The growth of cities, both socially and economically, has resulted in a higher utilization of trains and high-density mobility. However, this has also led to an escalation of urban environmental issues, specifically pertaining to noise generated by rail operations. The amplified contact between wheels and rails, as well as the vibrations in trains and track structures, contributes to railway noise pollution. While there is existing research on railway noise, there remains a notable gap in the investigation of noise generated specifically at curved sections of railway tracks. Hence, this paper presents 110 sets of tram curve noise datasets, recorded with the MOTIV APP in accordance with ISO 3095:2013 standards. The dataset covers impact, rolling, flanging, and squeal noise, alongside parameters such as speed, direction, crowd levels, and weather conditions. The data are collected by recording the noise generated by the trams at the centre of the curve alignment when the trams traverse along the curve alignment. The comprehensive dataset and analysis contribute valuable insights into tram curve noise, aiding urban planning and noise mitigation efforts.
Common molecular profile of multiple structurally distinct warfare arsenicals in causing cutaneous chemical vesicant injury
Authors: Srivastava Ritesh Kumar , Muzaffar Suhail , Khan Jasim , Bansal Mohit , Agarwal Anupam , Athar Mohammad 
Published: February 2025

Abstract
Skin exposure to arsenicals such as lewisite and phenylarsine oxide leads to severe cutaneous damage. Here, we characterized the molecular pathogenesis of skin injury caused by additionally structurally distinct warfare arsenicals including diphenylchlorarsine (DPCA), diphenylcyanoarsine (DPCYA), diethylchloroarsine (DECA). Cutaneous exposure to DPCA/DPCYA showed marked increase in skin erythema and edema at 6 and 24 h followed by scar formation at 72 h, while DECA did not produce such visual injuries in mouse skin. Clinical observations showed significant increase in Draize score and skin bi-fold thickness in a time-dependent manner. DPCA or DPCYA-exposed skin histology revealed highly inflamed hypodermal areas with infiltrated immune cells at 6 and 24 h, however, epidermal cell necrosis was seen at 72 h. Significantly high number of macrophage infiltration observed at 6 h, whereas peak neutrophil infiltration occurred at 72 h. Number of micro-blisters also increased. However, these effects were nonsignificant following topical DECA exposure. RT-PCR confirmed augmented inflammatory responses in the skin challenged with both DPCA/DPCYA, which accompanied increased ROS and unfolded protein response (UPR) signaling. DECA also increased ROS with changes in UPR. Disrupted tight (Yap/ZO-1) and adherens (Yap/α-Catenin) junction proteins underlie time-dependent apoptotic cell death of epidermal keratinocytes. Thus, these studies identify arsenicals-manifested signaling pathways similar to those of lewisite.
Measurements of face mask’s capability to block ionizing radiation
Authors: Wu Hsingtzu , Liu Hong-Da , Lin Tzu-Hsiang , Lin Ming-Wei 
Published: February 2025

Abstract
Experts suggest wearing a face mask during a radiation emergency if it is impossible to get inside immediately and high-level protective respirators are unavailable. This study quantitatively investigated seven face mask materials’ ability to block radioactive alpha and beta radiation. Rayon fiber, pure cotton, paper fiber, polyester fiber, nonwoven fiber, advanced nonwoven fiber, and N95 were examined. The results suggest that the abovementioned mask materials can block more than 90% of alpha particles. Rayon fiber, polyester fiber, and N95 can block almost all radioactive alpha particles. On the other hand, the measurements suggest that all tested materials could not effectively block beta particles. Polyester fiber and N95 block more than 10% of beta particles, which outperform other mask materials. In addition, the results imply that the electret fiber might help block beta particles. This study suggests that wearing a relatively thick polyester or N95 mask may be a better choice than wearing a thin nonwoven mask to prevent inhaling alpha and beta particles during a radiation emergency.
Provably secure and lightweight blockchain based cross hospital authentication scheme for IoMT-based healthcare
Authors: Xie Qi , Ding Zixuan 
Published: February 2025

Abstract
Portable devices and sensors-based Internet of Medical Things (IoMT) healthcare can remotely detect patients’ physiological data and provide first-class healthcare services. However, the high privacy and sensitivity of medical data make IoMT healthcare systems vulnerable to various attacks. While numerous authentication protocols have been introduced in recent years to guarantee authorized access, these schemes continue to face challenges such as privacy disclosure, untraceability of malicious behavior, insufficient cross-hospital access, and concerns related to single points of failure and trust. To address these issues, we propose a Double Anonymity Strategy to hide identities between doctors and the patients while allowing the authorized party to track their malicious behavior, enhance users’ privacy and track malicious users. Our approach leverages the advantages of blockchain, such as decentralization, and replaces trusted third parties with smart contracts for efficient and automatic identity authentication. Additionally, we introduce a cross-hospital authentication scheme that incorporates three-factor secrecy, ensuring that even if any two of the three factors (device, biometric information and password) are compromised, the security of the proposed scheme will not be affected. The security of our scheme is formally proven under the random oracle model, which formally measures that the probability of an adversary breaking the scheme is negligible. We also provide informal security analysis showing that our scheme prevents privacy breaches, achieves decentralization, and addresses existing various attacks. Furthermore, through simulation of the proposed scheme and comparison with related works, we demonstrate that our scheme achieves 23% to 87% reduction in computational cost while maintaining higher security properties.
Semi-supervised tissue segmentation from histopathological images with consistency regularization and uncertainty estimation
Authors: Sudhamsh G. V. S. , Girisha S. , Rashmi R. 
Published: February 2025

Abstract
Pathologists have depended on their visual experience to assess tissue structures in smear images, which was time-consuming, error-prone, and inconsistent. Deep learning, particularly Convolutional Neural Networks (CNNs), offers the ability to automate this procedure by recognizing patterns in tissue images. However, training these models necessitates huge amounts of labeled data, which can be difficult to come by due to the skill required for annotation and the unavailability of data, particularly for rare diseases. This work introduces a new semi-supervised method for tissue structure semantic segmentation in histopathological images. The study presents a CNN based teacher model that generates pseudo-labels to train a student model, aiming to overcome the drawbacks of conventional supervised learning approaches. Self-supervised training is used to improve the teacher model’s performance on smaller datasets. Consistency regularization is integrated to efficiently train the student model on labeled data. Further, the study uses Monte Carlo dropout to estimate the uncertainty of proposed model. The proposed model demonstrated promising results by achieving an mIoU score of 0.64 on a public dataset, highlighting its potential to improve segmentation accuracy in histopathological image analysis.
Association of inflammatory risk based on the Glasgow Prognostic Score with long-term mortality in patients with cardiovascular disease
Authors: Zhu Houyong , Yang Chao , Liu Xiao , Zhu Xinyu , Xu Xiaoqun , Wang Hanxin , Chen Qilan , Fang Xiaojiang , Huang Jinyu , Chen Tielong 
Published: February 2025

Abstract
The secondary prevention strategy for cardiovascular disease (CVD) does not include anti-inflammatory treatment, which may lead to long-term inflammation in some patients. The aim of this study was to assess the association between inflammatory risk based on the Glasgow Prognostic Score (GPS) and long-term mortality risk in patients with CVD. This study included 3833 patients (≥ 20 years old) with CVD in the National Health and Nutrition Survey from 1999 to 2010 in the United States. The mortality rate was determined by correlation with the National Death Index on December 31, 2019. The GPS consists of the serum C-reactive protein and the serum albumin. The primary outcome was all-cause death, which included cardiac death and non-cardiac death. Cox proportional hazards adjusted for demographic factors and traditional cardiovascular risk factors were used to test the impact of the GPS on mortality. The sensitivity analysis was conducted on subsets within the cohort of patients with CVD, including congestive heart failure, coronary artery disease, angina, heart attack, and stroke. Among 3833 CVD patients with a median follow-up of 9.6 years, 2431 (63.4%) all-cause deaths, 822 (21.4%) cardiac deaths, and 1609 (41.9%) non-cardiac deaths were recorded. After full model adjustment, compared with those of the GPS (0) group, the hazard ratios (HRs) of all-cause death for GPS (1) and GPS (2) were 1.66 (95% confidence interval (CI), 1.48–1.86) and 2.75 (95% CI 2.01–3.75), respectively (P for trend < 0.001). Compared with those of the GPS (0) group, the HRs of cardiac death for the GPS (1) and GPS (2) groups were 1.69 (95% CI 1.39–2.05) and 2.18 (95% CI 1.22–3.91), respectively (P for trend < 0.001). Compared with those of the GPS (0) group, the HRs of non-cardiac death for the GPS (1) and GPS (2) groups were 1.65 (95% CI 1.44–1.89) and 3.05 (95% CI 2.11–4.40), respectively (P for trend < 0.001). The results of the sensitivity analysis were similar to those of the overall cohort. In our analysis of the United States National Database, we discovered that the GPS, a measure of inflammatory risk, was significantly associated with an increased risk of mortality among patients with CVD. Specifically, we observed that patients with a higher GPS had significantly higher risks of all-cause, cardiac, and non-cardiac mortality compared to those with a lower score. These findings suggest that the GPS, comprising easily obtainable biomarkers, could serve as a valuable tool for risk stratification in CVD patients and may contribute to the improvement of patient outcomes.
A new cut-off value of FRAX tools as an osteoporosis screening tool for Thai geriatric population
Authors: Asavamongkolkul Apichat , Adulkasem Nath , Vanitcharoenkul Ekasame , Chandhanayingyong Chandhanarat , Laohaprasitiporn Panai , Soparat Krabkaew , Chotiyarnwong Pojchong , Unnanuntana Aasis 
Published: February 2025

Abstract
Identifying osteoporosis in geriatric populations is essential for fragility fracture prevention. While dual-energy X-ray absorptiometry (DXA) remains the gold standard for diagnosing osteoporosis, its availability and cost for mass screening are limited. This study aims to determine an effective fracture risk assessment tool (FRAX) cut-off value for screening osteoporosis in the Thai geriatric population. The demographic data, FRAX hip fracture (HF), major osteoporotic fracture (MOF), and Bone mineral density (BMD) of community-dwelling Thai adults aged ≥ 60 years, conducted between March 2021 to August 2022 were analyzed. Osteoporosis is defined as a BMD T-score ≤ − 2.5. The accuracy of FRAX in identifying osteoporosis was assessed using the area under the receiver operating characteristic curve (AUC). Among 2991 participants (average age 69.2 ± 6.5 years), the discriminative ability was acceptable for both FRAX hip fracture (HF) (AUC = 0.75) and major osteoporotic fracture (MOF) (AUC = 0.72). A cut-off value of 1.5 for FRAX HF and 4.5 for FRAX MOF demonstrated excellent sensitivity (90.4%) and a high negative predictive value (89.7%) in osteoporosis detection. This study identifies FRAX cut-off values that can effectively screen for high-risk osteoporosis in the Thai geriatric population and suggests that FRAX could be a valuable tool for initial osteoporosis screening in Thai seniors.
Tendency to overeat predicts an elevated body mass index trajectory across school-age years
Authors: Sarkkola Catharina , Lommi Sohvi , Elomaa Kris , Kajantie Eero , Männistö Satu , Viljakainen Heli 
Published: February 2025

Abstract
Overeating is a complex appetite trait, cross-sectionally linked to an elevated weight in children. However, little is known about longitudinal associations. Therefore, we studied how a tendency towards overeating predicts weight development between 8 and 16 years of age. In this study among 4517 children from the Finnish Health in Teens cohort, parents reported their child’s tendency to overeat when children were on average 11.2 (SD 0.8) years old. Children were then categorised as overeating, possibly overeating, or not overeating. Height and weight measurements from two data collection periods were combined with growth data from a national health register, and age- and sex-standardised body mass index z-scores (BMIz) were calculated using the International Obesity Task Force reference. Children also reported their lifestyle factors, including food consumption, physical activity, screen time, and sleep patterns. We examined the association between overeating and BMIz using a linear mixed model, adjusting for age, sex, specific food consumption frequencies, physical activity, screen time, and sleep duration. We further analysed whether associations differed by age, food consumption frequencies, or physical activity. The average BMIz in the overeating group was 1.18 (95% CI 1.10─1.26) units higher compared with those without overeating, but remained stable as age increased. Among those without overeating, BMIz increased 0.043 units per year of age (p < 0.001). Physical activity, but not food consumption, modified the association between overeating and BMIz (p for interaction = 0.038). In the lowest third of physical activity (≤ 5 h/week), BMIz was 1.28 units higher (95% CI 1.15─1.41) in the overeating compared with the no overeating group, while in the highest third (≥ 9 h/week) the effect size was 1.08 (95% CI 0.93─1.24). In conclusion, children with a parent-reported tendency to overeat exhibited an elevated, but stable mean BMIz across adolescence. Public health programmes tackling the obesity epidemic should consider the differences in appetite self-regulation among children.