bluuebunny/crossref_metadata_2025_split huggingface dataset:
Viral genetic clustering and transmission dynamics of the 2022 mpox outbreak in Portugal
Authors: Borges Vítor , Duque Mariana Perez , Martins João Vieira , Vasconcelos Paula , Ferreira Rita , Sobral Daniel , Pelerito Ana , de Carvalho Isabel Lopes , Núncio Maria Sofia , Borrego Maria José , Roemer Cornelius , Neher Richard A. , O’Driscoll Megan , Rocha Raquel , Lopo Sílvia , Neves Raquel , Palminha Paula , Coelho Luís , Nunes Alexandra , Isidro Joana , Pinto Miguel , Santos João Dourado , Mixão Verónica , Santos Daniela , Duarte Silvia , Vieira Luís , Martins Fátima , Machado Jorge , Veríssimo Vítor Cabral , Grau Berta , Peralta-Santos André , Neves José , Caldeira Margarida , Pestana Mafalda , Fernandes Cândida , Caria João , Pinto Raquel , Póvoas Diana , Maltez Fernando , Sá Ana Isabel , Salvador Mafalda Brito , Teófilo Eugénio , Rocha Miguel , Moneti Virginia , Duque Luis Miguel , e Silva Francisco Ferreira , Baptista Teresa , Vasconcelos Joana , Casanova Sara , Mansinho Kamal , Alves João Vaz , Alves João , Silva António , Alpalhão Miguel , Brazão Cláudia , Sousa Diogo , Filipe Paulo , Pacheco Patrícia , Peruzzu Francesca , de Jesus Rita Patrocínio , Ferreira Luís , Mendez Josefina , Jordão Sofia , Duarte Frederico , Gonçalves Maria João , Pena Eduarda , Silva Claúdio Nunes , Guimarães André Rodrigues , Tavares Margarida , Freitas Graça , Cordeiro Rita , Gomes João Paulo 
Published: September 2023

AbstractPathogen genome sequencing during epidemics enhances our ability to identify and understand suspected clusters and investigate their relationships. Here, we combine genomic and epidemiological data of the 2022 mpox outbreak to better understand early viral spread, diversification and transmission dynamics. By sequencing 52% of the confirmed cases in Portugal, we identified the mpox virus sublineages with the highest impact on case numbers and fitted them into a global context, finding evidence that several international sublineages probably emerged or spread early in Portugal. We estimated a 62% infection reporting rate and that 1.3% of the population of men who have sex with men in Portugal were infected. We infer the critical role played by sexual networks and superspreader gatherings, such as sauna attendance, in the dissemination of mpox virus. Overall, our findings highlight genomic epidemiology as a tool for the real-time monitoring and control of mpox epidemics, and can guide future vaccine policy in a highly susceptible population.
Investigation of optimizing indocyanine green solution for in vivo lymphatic research using near-infrared fluorescence indocyanine green lymphangiography
Authors: Cheon Hwayeong , Kim Sang Ah , Kim Bumchul , Jeon Jae Yong 
Published: September 2023

AbstractDespite the tireless efforts of many researchers in lymphatic research, indocyanine green (ICG) solution conditions suitable for lymphatic circulation tests have not been perfectly established yet. We aimed to investigate the optimal in vivo conditions of ICG solution to avoid photobleaching and quenching effects, which may affect the accuracy of lymphatic circulation evaluation. After ICG fluorescence intensity (or ICG intensity) was assessed under different in vitro conditions, the image quality of brachial lymph nodes (LNs) and collecting lymphatic vessels (LVs) in eight rats was investigated. The in vitro results showed that ICG intensity depends on concentration and time in various solvents; however, the brightest intensity was observed at a concentration of 8–30 μg/mL in all solvents. ICG concentration in the albumin (bovine serum albumin; BSA) solution and rat’s plasma showed more than two times higher fluorescence intensity than in distilled water (DW) in the same range. However, saline reduced the intensity by almost half compared to DW. In the in vivo experiment, we obtained relatively high-quality images of the LNs and LVs using ICG in the BSA solution. Even at low concentrations, the result in the BSA solution was comparable to those obtained from high-concentration solutions commonly used in conventional circulation tests. This study provides valuable information about the conditions for optimal ICG intensity in near infrared fluorescence indocyanine green (NIRF-ICG) lymphangiography, which may be useful not only for the diagnosis of lymphatic circulation diseases such as lymphedema but also for preclinical research for the lymphatic system.
Sex and menstrual cycle influence human spatial navigation strategies and performance
Authors: Brown Alana , Burles Ford , Iaria Giuseppe , Einstein Gillian , Moscovitch Morris 
Published: September 2023

AbstractWhich facets of human spatial navigation do sex and menstrual cycle influence? To answer this question, a cross-sectional online study of reproductive age women and men was conducted in which participants were asked to demonstrate and self-report their spatial navigation skills and strategies. Participants self-reported their sex and current menstrual phase [early follicular (EF), late follicular/periovulatory (PO), and mid/late luteal (ML)], and completed a series of questionnaires and tasks measuring self-reported navigation strategy use, topographical memory, cognitive map formation, face recognition, and path integration. We found that sex influenced self-reported use of cognitive map- and scene-based strategies, face recognition, and path integration. Menstrual phase moderated the influence of sex: compared to men, women had better face recognition and worse path integration, but only during the PO phase; PO women were also better at path integration in the presence of a landmark compared to EF + ML women and men. These findings provide evidence that human spatial navigation varies with the menstrual cycle and suggest that sensitivity of the entorhinal cortex and longitudinal axis of the hippocampus to differential hormonal effects may account for this variation.
Comparison of Gastric Alimetry® body surface gastric mapping versus electrogastrography spectral analysis
Authors: Schamberg Gabriel , Calder Stefan , Varghese Chris , Xu William , Wang William Jiaen , Ho Vincent , Daker Charlotte , Andrews Christopher N. , O’Grady Greg , Gharibans Armen A. 
Published: September 2023

AbstractElectrogastrography (EGG) non-invasively evaluates gastric motility but is viewed as lacking clinical utility. Gastric Alimetry® is a new diagnostic test that combines high-resolution body surface gastric mapping (BSGM) with validated symptom profiling, with the goal of overcoming EGG’s limitations. This study directly compared EGG and BSGM to define performance differences in spectral analysis. Comparisons between Gastric Alimetry BSGM and EGG were conducted by protocolized retrospective evaluation of 178 subjects [110 controls; 68 nausea and vomiting (NVS) and/or type 1 diabetes (T1D)]. Comparisons followed standard methodologies for each test (pre-processing, post-processing, analysis), with statistical evaluations for group-level differences, symptom correlations, and patient-level classifications. BSGM showed substantially tighter frequency ranges vs EGG in controls. Both tests detected rhythm instability in NVS, but EGG showed opposite frequency effects in T1D. BSGM showed an 8× increase in the number of significant correlations with symptoms. BSGM accuracy for patient-level classification was 0.78 for patients vs controls and 0.96 as compared to blinded consensus panel; EGG accuracy was 0.54 and 0.43. EGG detected group-level differences in patients, but lacked symptom correlations and showed poor accuracy for patient-level classification, explaining EGG’s limited clinical utility. BSGM demonstrated substantial performance improvements across all domains.
Fibulin-3 is necessary to prevent cardiac rupture following myocardial infarction
Authors: Murtha Lucy A. , Hardy Sean A. , Mabotuwana Nishani S. , Bigland Mark J. , Bailey Taleah , Raguram Kalyan , Liu Saifei , Ngo Doan T. , Sverdlov Aaron L. , Tomin Tamara , Birner-Gruenberger Ruth , Hume Robert D. , Iismaa Siiri E. , Humphreys David T. , Patrick Ralph , Chong James J. H. , Lee Randall J. , Harvey Richard P. , Graham Robert M. , Rainer Peter P. , Boyle Andrew J. 
Published: September 2023

AbstractDespite the high prevalence of heart failure in the western world, there are few effective treatments. Fibulin-3 is a protein involved in extracellular matrix (ECM) structural integrity, however its role in the heart is unknown. We have demonstrated, using single cell RNA-seq, that fibulin-3 was highly expressed in quiescent murine cardiac fibroblasts, with expression highest prior to injury and late post-infarct (from ~ day-28 to week-8). In humans, fibulin-3 was upregulated in left ventricular tissue and plasma of heart failure patients. Fibulin-3 knockout (Efemp1−/−) and wildtype mice were subjected to experimental myocardial infarction. Fibulin-3 deletion resulted in significantly higher rate of cardiac rupture days 3–6 post-infarct, indicating a weak and poorly formed scar, with severe ventricular remodelling in surviving mice at day-28 post-infarct. Fibulin-3 knockout mice demonstrated less collagen deposition at day-3 post-infarct, with abnormal collagen fibre-alignment. RNA-seq on day-3 infarct tissue revealed upregulation of ECM degradation and inflammatory genes, but downregulation of ECM assembly/structure/organisation genes in fibulin-3 knockout mice. GSEA pathway analysis showed enrichment of inflammatory pathways and a depletion of ECM organisation pathways. Fibulin-3 originates from cardiac fibroblasts, is upregulated in human heart failure, and is necessary for correct ECM organisation/structural integrity of fibrotic tissue to prevent cardiac rupture post-infarct.
Optimal energy management applying load elasticity integrating renewable resources
Authors: Ragab Mohamed Mustafa , Ibrahim Rania A. , Desouki Hussein , Swief Rania 
Published: September 2023

AbstractUrban growth aimed at developing smart cities confronts several obstacles, such as difficulties and costs in constructing stations and meeting consumer demands. These are possible to overcome by integrating Renewable Energy Resources (RESs) with the help of demand side management (DSM) for managing generation and loading profiles to minimize electricity bills while accounting for reduction in carbon emissions and the peak to average ratio (PAR) of the load. This study aims to achieve a multi-objective goal of optimizing energy management in smart cities which is accomplished by optimally allocating RESs combined with DSM for creating a flexible load profile under RESs and load uncertainty. A comprehensive study is applied to IEEE 69-bus with different scenarios using Sea-Horse Optimization (SHO) for optimal citing and sizing of the RESs while serving the objectives of minimizing total power losses and reducing PAR. SHO performance is evaluated and compared to other techniques such as Genetic Algorithm (GA), Grey Wolf Optimization (GWO), Whale Optimization (WO), and Zebra Optimization (ZO) algorithms. The results show that combining elastic load shifting with optimal sizing and allocation using SHO achieves a global optimum solution for the highest power loss reduction while using a significantly smaller sized RESs than the counterpart.
Global proteomic identifies multiple cancer-related signaling pathways altered by a gut pathobiont associated with colorectal cancer
Authors: Pasquereau-Kotula Ewa , Nigro Giulia , Dingli Florent , Loew Damarys , Poullet Patrick , Xu Yi , Kopetz Scott , Davis Jennifer , Peduto Lucie , Robbe-Masselot Catherine , Sansonetti Philippe , Trieu-Cuot Patrick , Dramsi Shaynoor 
Published: September 2023

AbstractIn this work, we investigated the oncogenic role of Streptococcus gallolyticus subsp. gallolyticus (SGG), a gut bacterium associated with colorectal cancer (CRC). We showed that SGG UCN34 accelerates colon tumor development in a chemically induced CRC murine model. Full proteome and phosphoproteome analysis of murine colons chronically colonized by SGG UCN34 revealed that 164 proteins and 725 phosphorylation sites were differentially regulated. Ingenuity Pathway Analysis (IPA) indicates a pro-tumoral shift specifically induced by SGG UCN34, as ~ 90% of proteins and phosphoproteins identified were associated with digestive cancer. Comprehensive analysis of the altered phosphoproteins using ROMA software revealed up-regulation of several cancer hallmark pathways such as MAPK, mTOR and integrin/ILK/actin, affecting epithelial and stromal colonic cells. Importantly, an independent analysis of protein arrays of human colon tumors colonized with SGG showed up-regulation of PI3K/Akt/mTOR and MAPK pathways, providing clinical relevance to our findings. To test SGG’s capacity to induce pre-cancerous transformation of the murine colonic epithelium, we grew ex vivo organoids which revealed unusual structures with compact morphology. Taken together, our results demonstrate the oncogenic role of SGG UCN34 in a murine model of CRC associated with activation of multiple cancer-related signaling pathways.
An analytical method informed by clinical imaging data for estimating outlet boundary conditions in computational fluid dynamics analysis of carotid artery blood flow
Authors: Kizhisseri Muhsin , Gharaie Saleh , Schluter Jorg 
Published: September 2023

AbstractStroke occur mainly due to arterial thrombosis and rupture of cerebral blood vessels. Previous studies showed that blood flow-induced wall shear stress is an essential bio marker for estimating atherogenesis. It is a common practice to use computational fluid dynamics (CFD) simulations to calculate wall shear stress and to quantify blood flow. Reliability of predicted CFD results greatly depends on the accuracy of applied boundary conditions. Previously, the boundary conditions were estimated by varying values so that they matched the clinical data. It is applicable upon the availability of clinical data. Meanwhile, in most cases all that can be accessed are arterial geometry and inflow rate. Consequently, there is a need to devise a tool to estimate boundary values such as resistance and compliance of arteries. This study proposes an analytical framework to estimate the boundary conditions for a carotid artery based on the geometries of the downstream arteries available from clinical images.
Erythropoietin mitigated thioacetamide-induced renal injury via JAK2/STAT5 and AMPK pathway
Authors: Elbaset Marawan A. , Mohamed Bassim M. S. A. , Gad Shaimaa A. , Afifi Sherif M. , Esatbeyoglu Tuba , Abdelrahman Sahar S. , Fayed Hany M. 
Published: September 2023

AbstractThe kidney flushes out toxic substances and metabolic waste products, and homeostasis is maintained owing to the kidney efforts. Unfortunately, kidney disease is one of the illnesses with a poor prognosis and a high death rate. The current investigation was set out to assess erythropoietin (EPO) potential therapeutic benefits against thioacetamide (TAA)-induced kidney injury in rats. EPO treatment improved kidney functions, ameliorated serum urea, creatinine, and malondialdehyde, increased renal levels of reduced glutathione, and slowed the rise of JAK2, STAT5, AMPK, and their phosphorylated forms induced by TAA. EPO treatment also greatly suppressed JAK2, Phosphatidylinositol 3-kinases, and The Protein Kinase R-like ER Kinase gene expressions and mitigated the histopathological alterations brought on by TAA toxicity. EPO antioxidant and anti-inflammatory properties protected TAA-damaged kidneys. EPO regulates AMPK, JAK2/STAT5, and pro-inflammatory mediator synthesis.
Material to system-level benchmarking of CMOS-integrated RRAM with ultra-fast switching for low power on-chip learning
Authors: Abedin Minhaz , Gong Nanbo , Beckmann Karsten , Liehr Maximilian , Saraf Iqbal , Van der Straten Oscar , Ando Takashi , Cady Nathaniel 
Published: September 2023

AbstractAnalog hardware-based training provides a promising solution to developing state-of-the-art power-hungry artificial intelligence models. Non-volatile memory hardware such as resistive random access memory (RRAM) has the potential to provide a low power alternative. The training accuracy of analog hardware depends on RRAM switching properties including the number of discrete conductance states and conductance variability. Furthermore, the overall power consumption of the system inversely correlates with the RRAM devices conductance. To study material dependence of these properties, TaOx and HfOx RRAM devices in one-transistor one-RRAM configuration (1T1R) were fabricated using a custom 65 nm CMOS fabrication process. Analog switching performance was studied with a range of initial forming compliance current (200–500 µA) and analog switching tests with ultra-short pulse width (300 ps) was carried out. We report that by utilizing low current during electroforming and high compliance current during analog switching, a large number of RRAM conductance states can be achieved while maintaining low conductance state. While both TaOx and HfOx could be switched to more than 20 distinct states, TaOx devices exhibited 10× lower conductance, which reduces total power consumption for array-level operations. Furthermore, we adopted an analog, fully in-memory training algorithm for system-level training accuracy benchmarking and showed that implementing TaOx 1T1R cells could yield an accuracy of up to 96.4% compared to 97% for the floating-point arithmetic baseline, while implementing HfOx devices would yield a maximum accuracy of 90.5%. Our experimental work and benchmarking approach paves the path for future materials engineering in analog-AI hardware for a low-power environment training.
Reconditioned monocytes are immunomodulatory and regulate inflammatory environment in sepsis
Authors: Jain Kshama , Mohan K. Varsha , Roy Gargi , Sinha Prakriti , Jayaraman Vignesh , Kiran  , Yadav Ajit Singh , Phasalkar Akshay , Deepanshu  , Pokhrel Anupa , Perumal Nagarajan , Sinha Nitin , Chaudhary Kiran , Upadhyay Pramod 
Published: September 2023

AbstractSepsis is caused by dysregulated immune response to severe infection and hyper inflammation plays a central role in worsening the disease. The immunomodulatory properties of mesenchymal stem cells (MSCs) have been evaluated as a therapeutic candidate for sepsis. Reconditioned monocytes (RM), generated from healthy human peripheral blood mononuclear cells (PBMCs) exhibit both macrophage and MSCs-like properties. RM were administered at different stages of sepsis in a mouse model. It reduced serum levels of IL6, MCP-1, IL-10, improved hypothermia, increased survival, and recovery from 0 to 66% when combined with antibiotics in the mouse model. The reduced human leucocyte antigen DR molecules expression on RM enables their co-culture with PBMCs of sepsis patients which resulted in reduced ROS production, and up-regulated TGF-β while down-regulating IL6, IL8, and IL-10 in-vitro. RM are potentially immunomodulatory, enhance survival in sepsis mouse model and modulate inflammatory behaviour of sepsis patient’s PBMCs.
Sex differences in major adverse cardiovascular and cerebrovascular event risk among central retinal artery occlusion patients
Authors: Chen Ting , Wang Yuedan , Li Xuejie , Feng Jiaqing , Yang Hongxia , Li Ying , Feng Hui , Xiao Xuan 
Published: September 2023

AbstractTo estimate the association between central retinal artery occlusion (CRAO) and major adverse cardiovascular and cerebrovascular events (MACCE), including their clinical characteristics, blood markers, and the contribution of CRAO to MACCE, as well as to assess any sex differences. This retrospective cohort study included continuous new-onset CRAO patients and 1:4 controls during the same period. Correlations of CRAO with the incidence of MACCE during follow-up and the sex-related differences were studied. One hundred and twenty-four CRAO patients and four hundred and ninety-six controls were enrolled. Neutrophil-to-lymphocyte ratio (NLR, P = 0.014) and high-sensitivity C-reactive protein (hs-CRP, P = 0.038) were tended to be higher in CRAO patients. After the follow-up period, 78 patients experienced MACCE. Multivariate Cox regression analysis showed that CRAO was a predictor of the occurrence of MACCE (HR 2.321, 95% CI 1.439–3.744, P = 0.001). Sex subgroups indicated that age, diabetes, current smoking, CRAO, NLR and hs-CRP increased the risk factor of MACCE in males (All P < 0.05) and CRAO, NLR, low-density lipoprotein cholesterol (LDL-C) and hs-CRP were independent influencing factors for females (All P < 0.05). New-onset CRAO significantly increases the probability of MACCE and is associated with a poor prognosis. The sex-related differences suggested that effective prevention of the occurrence of MACCE in high-risk patients requires that attention be given to individualized risk factors corresponding to sexes.
An AI-powered navigation framework to achieve an automated acquisition of cardiac ultrasound images
Authors: Soemantoro Raska , Kardos Attila , Tang Gilbert , Zhao Yifan 
Published: September 2023

AbstractEchocardiography is an effective tool for diagnosing cardiovascular disease. However, numerous challenges affect its accessibility, including skill requirements, workforce shortage, and sonographer strain. We introduce a navigation framework for the automated acquisition of echocardiography images, consisting of 3 modules: perception, intelligence, and control. The perception module contains an ultrasound probe, a probe actuator, and a locator camera. Information from this module is sent to the intelligence module, which grades the quality of an ultrasound image for different echocardiography views. The window search algorithm in the control module governs the decision-making process in probe movement, finding the best location based on known probe traversal positions and image quality. We conducted a series of simulations using the HeartWorks simulator to assess the proposed framework. This study achieved an accuracy of 99% for the image quality model, 96% for the probe locator model, and 99% for the view classification model, trained on an 80/20 training and testing split. We found that the best search area corresponds with general guidelines: at the anatomical left of the sternum between the 2nd and 5th intercostal space. Additionally, the likelihood of successful acquisition is also driven by how long it stores past coordinates and how much it corrects itself. Results suggest that achieving an automated echocardiography system is feasible using the proposed framework. The long-term vision is of a widely accessible and accurate heart imaging capability within hospitals and community-based settings that enables timely diagnosis of early-stage heart disease.