bluuebunny/crossref_metadata_2025_split huggingface dataset:
CETP expression in females increases body metabolism under both cold exposure and thermoneutrality contributing to a leaner phenotype
Authors: Castelli Júlia Z. , Raposo Helena F. , Navarro Claudia D. C. , Lazaro Carolina M. , Sartori Marina R. , Dalla Costa Ana Paula , Nogueira Pedro A. S. , Velloso Lício A. , Vercesi Anibal E. , Oliveira Helena C. F. 
Published: February 2025

AbstractSusceptibility to obesity differs depending on the genetic background and housing temperatures. We have recently reported that CETP expressing female mice are leaner due to increased lipolysis, brown adipose tissue (BAT) activity, and body energy expenditure compared to nontransgenic (NTg) littermates under standard housing temperature (22°C). The aim of this study is to evaluate how CETP expression affects body temperature, composition, and metabolism during cold exposure (4°C) and thermoneutrality (30°C). When submitted to cold, CETP mice maintained rectal temperature, body weight, and food intake similarly to NTg mice along acute or chronic exposure to 4°C. The body oxygen consumption in response to an isoproterenol challenge was 21% higher at 22°C, and 41% higher after 7 days of cold exposure in CETP than in NTg mice. In addition, BAT biopsies from CETP mice showed reduced lipid content and increased basal oxygen consumption rates. Under thermoneutrality (30°C), when BAT activity is inhibited, CETP mice showed higher rectal and tail temperatures, increased food intake, and increased energy expenditure. Lean mass was elevated and fat mass reduced in CETP mice kept at 30°C. In this thermoneutral condition, soleus muscle, but not gastrocnemius or liver of CETP mice, showed increased mitochondrial respiration rates. These data indicate that CETP expression confers a greater capacity of elevating body metabolic rates at both cold exposure, through BAT activity, and at thermoneutrality, through increased muscle metabolism. Thus, the CETP expression levels in females should be considered as a new influence in the contexts of obesity and metabolic disorders propensity.
Age-Related Changes and Spinal Sagittal Alignment in Asymptomatic Community Dwelling Adults Over 50
Authors: Wang Wei , Wang Zheng , Wang Dongfang , Liu Chengxin , Kong Chao , Zhu Weiguo , Pan Fumin , Li Xiangyu , Chen Xiaolong , Lu Shibao 
Published: February 2025

Study Design.
Monocentric, retrospective, cross-sectional study

Objective.
To investigate the age-related normative values of sagittal parameters and establish their relationships in asymptomatic community-dwelling adults aged over 50.

Background context.
Degenerative changes in the spine with aging alter the sagittal balance, causing spine pathologies. However, there was a lack of comprehensive study on age-related normative values of sagittal alignment and their relationship during degenerative evolution.

Methods.
Among a total of 1,370 volunteers, 701 asymptomatic volunteers were recruited. Participants underwent a lateral X-ray, and sagittal parameters were assessed using a customized computer application.

Results.
Age showed a stronger correlation with upper arc of thoracic kyphosis (Upper_TK) (r=0.39) compared to sagittal vertical axis (SVA) (r=0.28) and T1_slope (r=0.29). Lumbar lordosis (LL) did not exhibit a significant decrease with age. The geometrical relationship revealed a significant correlation between TK and LL (r=0.52), and LL and pelvic incidence (PI) (r=0.63), as per the equations: TK=Upper_TK+Lower arc of TK (Lower_TK), LL=Upper arc of LL (Upper_arc)+sacral slope (SS), Lower_TK≈Upper_arc, and PI=SS+pelvic tilt (PT). However, after removing intermediate control variables of Lower_TK (Upper_arc) and SS, the correlation between TK, LL, and PI was statistically weak, due to the little to no correlation between Lower_TK (Upper_arc), SS, and PT. Upper_arc (Lower_TK) was a relatively stable parameter with an age-independent value of 15.93±5.61° in elderly adults. For adults aged 60, Upper_TK significantly increased with age, while individuals over 75 exhibited a significant increase in PT and a decrease in SS and LL.

Conclusions.
Our study provided a normative age-related value of spinal sagittal parameters. To assess the spinal sagittal alignment, it was suggested that LL and TK be divided into two tangential arches based on the location of the lordotic or kyphotic apex. This study offered insights for spine surgeons in preparing for surgical corrections.
Telerehabilitation Resources for Educators in Physical Therapy
Authors: Davies Luke M. , Lee Alan C. , Davenport Todd E. , Russell Trevor G. 
Published: February 2025

Abstract
Research conducted during the COVID-19 pandemic has demonstrated the use of telehealth in physical therapy is not only necessary, but clinically effective in delivering physical therapy care that expands patient access and choice when it comes to personalized care. Recently, the telehealth literature includes an international clinical practice guideline with 7 recommendations for practitioners and students, 7 educational competencies with telehealth concepts for physical therapy educators, and 7 domains of core quality framework for videoconferencing for physical therapist training. Based on current evidence, the authors present these telerehabilitation resources for physical therapy educators to support education, research, and practice in telehealth.
The influence of different sugars and sugar alcohol, and cultivars in the osmotically dehydrated peach fruit. Analysis of mass transfer parameters and the variation in the organoleptic properties, bioactive and nutritive compounds, and pro-health properties in dried peaches
Authors: Salvañal Lara , Gabilondo Julieta , Corbino Graciela , Budde Claudio O. , Lara María Valeria 
Published: February 2025

AbstractPeach is a great-taste fruit, source of nutrients and bioactive compounds. It is a seasonal fruit that cannot be stored for prolonged periods of time. To increase its consumption over the year, promote its intake as a snack, utilize it in the industry, process the overproduced peach and to add value to the fruit, osmotic dehydration (OD) followed by hot-air drying (OD+D) is a suitable process. Here, we compared the use of three different osmolytes (glucose, sorbitol or sucrose) and four peach cultivars (Flordaking, Goldprince, Elegant Lady and Dixiland) exposed to OD+D to study the effects on organoleptic, nutritional and nutraceutical properties of the peach. OD+D slices were compared against fresh fruit exclusively exposed to hot-air treatment (D). A moisture content of 17.5% was obtained in OD+D and D peaches. Moisture content, water loss, solute gain and colour depended on the cultivar. Higher metabolite and antioxidant capacity retention was observed for OD+D peach slices compared to D peaches, minimizing adverse changes such as carotenoid decrease typical of D and even enhancing some features such as tannin content. Moreover, OD+D improved the inhibition of protease, α-amylase and α-amyloglucosidase, key enzymes involved in inflammatory processes and hyperglycemia management. The dehydration processes modified the antimicrobial capacity of peach slices, with responses varying depending on the cultivar and obtaining better inhibitions than in D. Finally, although mineral composition was altered in OD+D due to leaking to the solution, the addition of calcium in the hyperosmotic solution resulted in calcium enriched dried peaches. Collectively, the results obtained reveal the influence of the cultivar on the properties of the dried fruit and highlight the benefits of the osmotic pretreatments prior to conventional drying.
Pan-Cancer Biomarker Analysis from the Cancer Dependency Map: A Blueprint for Precision Oncology
Authors: Gong Dennis 
Published: February 2025

AbstractThe diversity of therapeutic modalities and targets continue to grow, and the number of cancer patients eligible for targeted therapy has expanded accordingly. Despite advances, response rates to individual targeted therapy drugs remain variable, rarely achieving uniform tumor shrinkage across patients. Biomarkers are crucial for identifying patients likely to respond to therapy while sparing non-responders from toxicity and guiding them toward alternative treatments. We conducted a multi-omic analysis of biomarker-dependency relationships across 1,150 cancer molecular profiles to identify novel biomarkers for patient stratification. We first validated the Cancer Dependency Map’s sensitivity and specificity in predicting therapeutic windows for targeted therapies. Next, we identified predictive biomarkers for single- and multi-gene dependencies, assessing their selectivity within biomarker-defined populations. Protein abundance analysis revealed potential immunohistochemistry (IHC) biomarkers for clinically deployed therapeutic compounds. We performed an analysis of lineage-enriched dependencies, highlighting new opportunities for target validation and drug development. Finally, we screen for associations between hotspot mutations, damaging mutations, and protein abundance, providing insights for developing heterobifunctional small molecules for induced proximity and protein degradation. These findings advance our understanding of cancer dependencies and inform biomarker-driven strategies to optimize therapeutic outcomes.
PROBind: A Web Server for Prediction, Analysis and Visualization of Protein-Protein and Protein-Nucleic Acid Binding Residues
Authors: Wu Chaojin , Zhang Fuhao , Jia Pengzhen , Zhu Jiuxiang , Zeng Min , Hu Gang , Wang Kui , Kurgan Lukasz , Li Min 
Published: February 2025

AbstractProtein–protein and protein–nucleic acids interactions are fundamental to numerous cellular functions, yet only a small fraction have been experimentally characterized. Although modern computational methods have been developed for predicting interacting residues in proteins, they are challenging to use due to individual installation and execution requirements, lack of a standardized input or output format, and absence of support for result analysis. Moreover, methods trained using structures of complexes or intrinsically disordered regions, may not perform well on other types. To overcome these challenges, we develop PROBind, a web server for predicting, analyzing, and interactively visualizing protein, DNA and RNA binding residues from both protein sequences and structures. PROBind integrates 12 predictors trained on structural or disordered proteins, and supports the upload of results from external predictors. By normalizing and averaging predictions from multiple predictors targeting the same ligand type, PROBind generates meta-predictions that balance discrepancies among different methods. Furthermore, it provides interactive graphical tools for result analysis and contextualization. Overall, PROBind accommodates diverse ligand types and supports predictions and analysis based on both structure and sequence data, overcoming the limitations of existing tools. PROBind is freely accessible athttps://www.csuligroup.com/PROBind.
Investigating the factors influencing antibiotic use practices and their association with antimicrobial resistance awareness among poultry farmers in Enugu State, Nigeria
Authors: Ejikeugwu Chika P. , Nwakaeze Emmanuel A. , Aniekwe Chikaodi W. , Onu Euslar N. , Adikwu Michael U. , Eze Peter M. 
Published: February 2025

ABSTRACTBackgroundThe irrational use of antibiotics in poultry production has far-reaching consequences and continues to impact the fight against antimicrobial resistance (AMR) in Africa. In Nigeria, antibiotics are available over-the-counter and are widely used in food animal production for various reasons, including prophylaxis and growth promotion. While this practice may support animal production, it also drives the spread of AMR, posing serious health challenges due to close human-livestock interactions and the country’s high disease burden. This study examined poultry farmers’ knowledge, attitudes, and practices (KAP) regarding antibiotic use and AMR, aiming to highlight the public health risks and challenges in combating AMR in Nigeria.MethodsA cross-sectional survey of 200 poultry farms in Enugu State, Southeast Nigeria, was conducted to evaluate farmers’ KAP towards antibiotic usage and AMR. Using a validated, standardized, and self-administered questionnaire, data were collected from farmers responsible for key farm decisions, including input and feed management. The questionnaire comprised three sections: socio-demographic data, knowledge of AMR, and knowledge and practices regarding antibiotic use. Ethical approval was obtained, and participants gave oral consent based on their professional capacity.ResultsThe evaluation of poultry’s farmers KAP regarding antibiotic usage and AMR revealed that the majority of farmers (90.5%) reported using antibiotics, primarily for treating infections (80.5%) or for feed enhancement, growth promotion, and prophylaxis (61%). Ampicillin (75%), ciprofloxacin (71.5%), and doxycycline (71%) were the most commonly administered antibiotics. Monthly administration was the most common (48%), and 89% of respondents believed that antibiotics promote poultry growth. Interestingly, a substantial proportion of respondents (65%) were unaware of AMR, highlighting a significant knowledge gap, with only 16% recognizing the risk of AMR infections.ConclusionOur study revealed that the surveyed poultry farmers heavily rely on antibiotics, primarily for treating infections and, to a significant extent, for growth promotion, despite their limited awareness of AMR. Ampicillin was identified as the most commonly used antibiotic, raising concerns due to its potential link to beta-lactamase selection amid the country’s carbapenem resistance issues. These findings underscore the urgent need for targeted education to address the AMR knowledge gap and reduce the misuse of antibiotics in poultry farming settings in Nigeria.
Single-cell and spatially resolved atlas of pancreatic cancer reveals immunophenotypes associated with clinical outcome
Authors: Pozo de Mattos P. Gabriel F. , Lins Marvin Paulo , Fontoura Julia , Osvaldt Alessandro Bersch , dos Santos Machado Simone Marcia , Filippi-Chiela Eduardo Cremonese , Bonorino Cristina 
Published: February 2025

AbstractPancreatic ductal adenocarcinoma (PDAC), accounting for 90% of pancreatic neoplasms, is characterized by its poor prognosis, with a 5-year survival rate of only 12%. Most patients are diagnosed with metastatic or locally advanced disease, leaving only 15% eligible for curative resection. PDAC exhibits resistance to chemotherapy, targeted therapies, and immunotherapy, largely due to its highly heterogeneous tumor microenvironment (TME). In this study, we performed an integrative analysis of publicly available scRNA, spatial transcriptomics, and bulk RNA sequencing datasets to investigate the influence of TME composition and tumor architecture on PDAC progression, treatment response, and clinical outcomes. We identified TME subtypes with distinct cellular compositions, functional signatures, and immunomodulatory cell-cell interactions. Spatially distinct cellular niches and gene modules revealed heterogeneity across primary tumors and metastatic lesions. Deconvolution of these spatial niches in a large cohort of bulk RNA samples uncovered unique clusters associated with patient survival, providing novel insights into TME biology and its clinical implications. These findings underscore the importance of integrating multi-omics approaches to unravel the complexity of the PDAC TME and highlight its potential to inform therapeutic strategies and improve patient outcomes.
Inducible re-epithelialization of cancer cells increases autophagy and DNA damage: implications for breast cancer dormancy
Authors: Drago Garcia Diana , Giri Suvendu , Chattaerjee Rishita , Simoni Nieves Arturo , Abedrabbo Maha , Genna Alessandro , Uribe Rios Mary Luz , Lindzen Moshit , Sekar Arunachalam , Gupta Nitin , Aharoni Noa , Bhandari Tithi , Mayalagu Agalyan , Schwarzmüller Luisa , Tarade Nooraldeen , Zhu Rong , Mohan-Raju Harsha-Raj , Karatekin Feride , Roncato Francesco , Eyal-Lubling Yaniv , Keidar Tal , Nof Yam , Belugali Nataraj Nishanth , Bernshtein Karin Shira , Wagner Bettina , Ulhas Nair Nishanth , Sanghvi Neel , Alon Ronen , Seger Rony , Pikarsky Eli , Donzelli Sara , Blandino Giovanni , Wiemann Stefan , Lev Sima , Prywes Ron , Barkan Dalit , Rueda Oscar , Caldas Carlos , Ruppin Eytan , Shiloh Yosef , Dahlhoff Maik , Yarden Yosef 
Published: February 2025

AbstractEpithelial lineage differentiation is pivotal to mammary gland development and it can pause metastasis of breast cancer (BC) by inducing tumor dormancy. To simulate this, we expressed epithelial genes in mesenchymal BC cells. Inducible expression of the epithelialOVOLgenes in metastatic BC cells suppressed proliferation and migration. We found thatC1ORF116, an OVOL’s target, is susceptible to genetic and epigenetic aberrations in BC. It is regulated by steroids and functions as a putative autophagy receptor that inhibits antioxidants like thioredoxin. Accordingly, boosting epithelialization lowered glutathione, elevated reactive oxygen species and increased both DNA oxidation and double strand breaks. Epithelialization also associated with redistribution of NRF2 and an altered interplay among p38, ATM, and the other kinases regulating the DNA damage response. Hence, hormonal regulation of OVOLs and chronic stress might permit epithelial differentiation and retard exit from dormancy, while altering redox homeostasis and permitting DNA damage accumulation, which may awaken dormant tumors.
Hi-C sequencing data from cortex of laboratory rats
Authors: Kim Panjun , Ward Rachel R. , Sharp Burt M. , Williams Robert W. , Chen Hao 
Published: February 2025

AbstractThe three-dimensional conformation and packaging of chromosomes modulates the spatial organization of the nucleus, orchestrating DNA replication and repair, maintaining genome stability and integrity, and regulating gene expression. Hi-C methods provide high-resolution data on chromatin-to-chromatin interactions both within and among chromosomes at a genome-wide scale. Hi-C resolves topologically-associated domains (TADs) and chromatin loops that are linked to cell-specific transcriptional control. We present a comprehensive Hi-C dataset generated from the frontal cortex of laboratory rats, encompassing a diverse group of inbred strains (SHR/OlaIpcv, BN-Lx/Cub, BXH6/Cub, HXB2/Ipcv, HXB10/Ipcv, HXB23/Ipcv, HXB31/Ipcv, LE/Stm, F344/Stm) and an F1 hybrid (SHR/Olalpcv x BN/NHsdMcwi). This dataset serves as a valuable resource for studying the mechanisms by which three-dimensional chromatin architecture governs gene expression in the brain. Strain-specific variations in genome organization can illuminate the influence of chromatin structure on gene expression, neuronal functionality, and the predisposition to neurological and behavioral disorders.
Hydrophobic tuning with non-canonical amino acids in a copper metalloenzyme
Authors: Fischer Sandro , Natter Perdiguero Anton , Lau Kelvin , Deliz Liang Alexandria 
Published: February 2025

AbstractHydrophobicity controls many aspects of protein and enzyme function. Although hydrophobic tuning can be achieved to a limited extent with canonical amino acids, the incorporation of non-canonical amino acids (ncAAs) further extends this ability to enable new and improved functionality. Herein, we engineer an aminoacyl-tRNA synthetase/tRNA pair for the site-specific genetic encoding of a set of bulky, hydrophobic amino acids, namely cyclopentylalanine, cyclohexylalanine, and cycloheptylalanine. With the resulting orthogonal translations systems, we demonstrate the utility of ncAA-based hydrophobic tuning to engineer a bacterial laccase, which is both a classical metalloenzyme and a high-value catalyst for industrial processes. The resulting mutations conveyed significant improvements in catalytic activity, particularlykcatand total turnover number. The redox potential and structure-function relationships were examined to elucidate the source of this improved functionality. We envision that these tools for hydrophobic tuning will be highly valuable for general enzyme engineering and also in other fields, including peptide chemistry.
Impact of Aging on Theta-Phase Gamma-Amplitude Coupling During Learning: A Multivariate Analysis
Authors: Strzelczyk Dawid , Peylo Charline , Langer Nicolas 
Published: February 2025

AbstractAging is associated with cognitive decline and memory impairment, but the underlying neural mechanisms remain unclear. Phase-amplitude coupling (PAC) between mid-frontal theta (5 Hz) and occipital gamma (>30 Hz) oscillations is a proposed marker for parallel storage of multiple items in working memory. However, research has mainly focused on young individuals and epilepsy patients, with only a few studies on aging populations. Moreover, these studies have relied on univariate PAC methods, which can be flawed by potential spurious or biased PAC estimates due to non-stationarity of EEG signals. Additionally, these methods typically assess PAC at the level of individual electrodes, potentially overlooking the broader functional significance of theta-gamma coupling in coordinating neural activity across distant brain regions.To address these gaps, we employed multivariate PAC (mPAC) through generalized eigendecomposition (GED) analysis, which avoids the pitfalls of non-sinusoidal oscillations. 113 young and 117 older healthy participants engaged in a sequence learning paradigm (6423 sequence repetitions, 55’944 stimuli), in which they learned a fixed sequence of visual stimuli over repeated observations, allowing us to track the mPAC during the incremental process of learning.Behavioral results revealed that younger participants learned significantly faster than older participants. Neurophysiological data showed that mPAC increased over the course of learning in both age groups and could identify fast and slow learners. However, older participants exhibited lower mPAC compared to younger counterparts, which suggest compromised parallel storage of items in working memory in older age. Finally, stratification analysis revealed that mPAC effects persist across performance groups with similar mid-frontal theta levels, suggesting that theta alone does not account for these effects. These findings shed light on the age-related differences in memory formation processes and may guide interventions to enhance memory performance in older adults and slow learners.
Non-invasive peripheral delivery of CDNF fragment protects neurons in models of Parkinson’s and ALS
Authors: Yu Li Ying , Viljakainen Tuulikki , Beckett Liam , Nam Jinhan , Hyysalo Anu , Lüningschrör Patrick , Albert Katrina , Koppinen Tapani , Hyvärinen Tanja , Tossavainen Helena , Hellman Maarit , Airavaara Mikko , Sendtner Michael , Permi Perttu , Lindholm Päivi , Saarma Mart , Voutilainen Merja H. 
Published: February 2025

AbstractNon-invasive delivery of brain therapeutics is a key challenge for treating neurodegenerative diseases. Here, we discovered a novel carboxy (C)-terminal fragment of cerebral dopamine neurotrophic factor (C-CDNF) that protects dopamine (DA) and motoneurons (MNs) in rodent models of Parkinson’s disease (PD) and amyotrophic lateral sclerosis (ALS). C-CDNF retains the same structure as CDNF and similarly to CDNF regulates cell stress pathways but unorthodoxly enters cultured neurons and passes through the blood-brain barrier.In vivo, intracranially or peripherally delivered C-CDNF improves motor deficits, protects DA neurons, and restores motor behavior in a rat model of PD. Subcutaneous C-CDNF also protects MNs and reduces microglial activation in an ALS model. Based on our findings, beginning C-CDNF treatment soon after diagnosis is anticipated to delay progression of PD and ALS, thereby improving treatment outcome. Thus, systemic delivery of C-CDNF should simplify the administration of protein-based therapeutics to patients while reducing treatment risk and financial burden for patients and families.