bluuebunny/crossref_metadata_2025_split huggingface dataset:
Dynamic phenotypic reprogramming and chemoresistance induced by lung fibroblasts in small cell lung cancer
Authors: Lu Yuanhua , Li Hui , Zhao Peiyan , Tian Lin , Liu Yan , Sun XiaoDan , Cheng Ying 
Published: February 2024

AbstractSmall cell lung cancer (SCLC) is heterogenous in phenotype and microenvironment. Dynamic phenotypic reprogramming, leading to heterogeneity, is prevalent in SCLC, while the mechanisms remain incompletely understood. Cancer-associated fibroblasts (CAFs) possess comprehensive roles in cancer progression, while their function in phenotypic reprogramming of SCLC remain elusive. Here, we obtained transcriptome data of SCLC tissues from publicly available databases, subsequently estimated abundance of CAFs. We found CAF-abundant SCLC exhibited non-neuroendocrine (Non-NE) characteristics. Supporting this, the positive correlation of expression level of α-SMA, the CAF marker, and expression level of REST, protein typically expressed in Non-NE type SCLC, was identified in SCLC tissue arrays. Moreover, we revealed that fibroblasts inhibited NE markers expression and cell proliferation of SCLC cells in the co-culture system comprising lung fibroblasts and SCLC cells, indicating a phenotypic reprogramming from NE to Non-NE. During this process, fibroblast-derived IL-6 activated the JAK2/STAT3 signaling, upregulated c-MYC expression, and subsequently activated the NOTCH pathway, driving phenotypic reprogramming. Moreover, CAF-enriched SCLC exhibited increased immune cell infiltration, elevated expression of immune activation-related signatures, and checkpoint molecules. Our data also highlighted the chemoresistance induced by fibroblasts in SCLC cells, which was effectively reversed by JAK inhibitor. In conclusion, fibroblasts induced phenotypic reprogramming of SCLC cells from NE to Non-NE, likely contributes to inflamed immune microenvironment and chemoresistance. These findings provide novel insights into the clinical implications of CAFs in SCLC.
Prenatal alcohol exposure is associated with changes in placental gene co-expression networks
Authors: Deyssenroth Maya A. , Williams Randy P. , Lesseur Corina , Jacobson Sandra W. , Jacobson Joseph L. , Cheng Haoxiang , Bose Promita , Li Qian , Wainwright Helen , Meintjes Ernesta M. , Hao Ke , Chen Jia , Carter R. Colin 
Published: February 2024

AbstractAlcohol consumption during pregnancy can result in a range of adverse postnatal outcomes among exposed children. However, identifying at-risk children is challenging given the difficulty to confirm prenatal alcohol exposure and the lack of early diagnostic tools. Placental surveys present an important opportunity to uncover early biomarkers to identify those at risk. Here, we report the first transcriptome-wide evaluation to comprehensively evaluate human placental pathways altered by fetal alcohol exposure. In a prospective longitudinal birth cohort in Cape Town, South Africa, we performed bulk tissue RNAseq in placenta samples from 32 women reporting heavy drinking during pregnancy and 30 abstainers/light drinkers. Weighted gene co-expression network analysis (WGCNA) and differential gene expression analysis were performed to assess associations between fetal alcohol exposure and placental gene expression patterns at a network-wide and single gene level, respectively. The results revealed altered expression in genes related to erythropoiesis and angiogenesis, which are implicated in established postnatal phenotypes related to alcohol exposure, including disruptions in iron homeostasis, growth, and neurodevelopment. The reported findings provide insights into the molecular pathways affected by prenatal alcohol exposure and highlight the potential of placental biomarkers for detecting and understanding the effects of alcohol on fetal development.
MouseVUER: video based open-source system for laboratory mouse home-cage monitoring
Authors: Salem Ghadi , Cope Niall , Garmendia Marcial , Pu Alex , Somenhalli Abhishek , Krynitsky Jonathan , Cubert Noah , Jones Thomas , Dold George , Fletcher Anthony , Kravitz Alexxai , Pohida Thomas , Dennis John 
Published: February 2024

AbstractVideo monitoring of mice in the home-cage reveals behavior profiles without the disruptions caused by specialized test setups and makes it possible to quantify changes in behavior patterns continually over long time frames. Several commercial home-cage monitoring systems are available with varying costs and capabilities; however there are currently no open-source systems for home-cage monitoring. We present an open-source system for top-down video monitoring of research mice in a slightly modified home-cage. The system is designed for integration with Allentown NexGen ventilated racks and allows unobstructed view of up to three mice, but can also be operated outside the rack. The system has an easy to duplicate and assemble home-cage design along with a video acquisition solution. The system utilizes a depth video camera, and we demonstrate the robustness of depth video for home-cage mice monitoring. For researchers without access to Allentown NexGen ventilated racks, we provide designs and assembly instructions for a standalone non-ventilated rack solution that holds three systems for more compact and efficient housing. We make all the design files, along with detailed assembly and installation instructions, available on the project webpage (https://github.com/NIH-CIT-OIR-SPIS/MouseVUER).
Female tilapia, Oreochromis sp. mobilised energy differently for growth and reproduction according to living environment
Authors: Razali Ros Suhaida , Rahmah Sharifah , Shirly-Lim Yu Ling , Ghaffar Mazlan Abd , Mazelan Suhairi , Jalilah Mohamad , Lim Leong-Seng , Chang Yu Mei , Liang Li Qun , Chen Young-Mao , Liew Hon Jung 
Published: February 2024

AbstractThis study was conducted to investigate the energy mobilisation preference and ionoregulation pattern of female tilapia, Oreochromis sp. living in different environments. Three different treatments of tilapia as physiology compromising model were compared; tilapia cultured in recirculating aquaculture system (RAS as Treatment I—RAS), tilapia cultured in open water cage (Treatment II—Cage) and tilapia transferred from cage and cultured in RAS (Treatment III—Compensation). Results revealed that tilapia from Treatment I and III mobilised lipid to support gonadogenesis, whilst Treatment II tilapia mobilised glycogen as primary energy for daily exercise activity and reserved protein for growth. The gills and kidney Na+/K+ ATPase (NKA) activities remained relatively stable to maintain homeostasis with a stable Na+ and K+ levels. As a remark, this study revealed that tilapia strategized their energy mobilisation preference in accessing glycogen as an easy energy to support exercise metabolism and protein somatogenesis in cage culture condition, while tilapia cultured in RAS mobilised lipid for gonadagenesis purposes.
Predicting outcomes following lower extremity open revascularization using machine learning
Authors: Li Ben , Verma Raj , Beaton Derek , Tamim Hani , Hussain Mohamad A. , Hoballah Jamal J. , Lee Douglas S. , Wijeysundera Duminda N. , de Mestral Charles , Mamdani Muhammad , Al-Omran Mohammed 
Published: February 2024

AbstractLower extremity open revascularization is a treatment option for peripheral artery disease that carries significant peri-operative risks; however, outcome prediction tools remain limited. Using machine learning (ML), we developed automated algorithms that predict 30-day outcomes following lower extremity open revascularization. The National Surgical Quality Improvement Program targeted vascular database was used to identify patients who underwent lower extremity open revascularization for chronic atherosclerotic disease between 2011 and 2021. Input features included 37 pre-operative demographic/clinical variables. The primary outcome was 30-day major adverse limb event (MALE; composite of untreated loss of patency, major reintervention, or major amputation) or death. Our data were split into training (70%) and test (30%) sets. Using tenfold cross-validation, we trained 6 ML models. Overall, 24,309 patients were included. The primary outcome of 30-day MALE or death occurred in 2349 (9.3%) patients. Our best performing prediction model was XGBoost, achieving an area under the receiver operating characteristic curve (95% CI) of 0.93 (0.92–0.94). The calibration plot showed good agreement between predicted and observed event probabilities with a Brier score of 0.08. Our ML algorithm has potential for important utility in guiding risk mitigation strategies for patients being considered for lower extremity open revascularization to improve outcomes.
Evaluating the Bayesian causal inference model of intentional binding through computational modeling
Authors: Tanaka Takumi 
Published: February 2024

AbstractIntentional binding refers to the subjective compression of the time interval between an action and its consequence. While intentional binding has been widely used as a proxy for the sense of agency, its underlying mechanism has been largely veiled. Bayesian causal inference (BCI) has gained attention as a potential explanation, but currently lacks sufficient empirical support. Thus, this study implemented various computational models to describe the possible mechanisms of intentional binding, fitted them to individual observed data, and quantitatively evaluated their performance. The BCI models successfully isolated the parameters that potentially contributed to intentional binding (i.e., causal belief and temporal prediction) and generally better explained an observer’s time estimation than traditional models such as maximum likelihood estimation. The estimated parameter values suggested that the time compression resulted from an expectation that the actions would immediately cause sensory outcomes. Furthermore, I investigated the algorithm that realized this BCI and found probability-matching to be a plausible candidate; people might heuristically reconstruct event timing depending on causal uncertainty rather than optimally integrating causal and temporal posteriors. The evidence demonstrated the utility of computational modeling to investigate how humans infer the causal and temporal structures of events and individual differences in that process.
Preverbal infants’ understanding of social norms
Authors: Köster Moritz , Hepach Robert 
Published: February 2024

AbstractSocial norms are foundational to human cooperation and co-existence in social groups. A crucial marker of social norms is that a behavior is not only shared, but that the conformity to the behavior of others is a basis for social evaluation (i.e., reinforcement and sanctioning), taking the is, how individuals usually behave, to an ought, how individuals should behave to be socially approved by others. In this preregistered study, we show that 11-month-old infants grasp this fundamental aspect about social norms already in their first year. They showed a pupillary surprise response for unexpected social responses, namely the disapproval and exclusion of an individual who showed the same behavior like others or the approval and inclusion of an individual who behaved differently. That preverbal infants link the conformity with others’ behavior to social evaluations, before they respond to norm violations themselves, indicates that the foundations of social norm understanding lie in early infancy.
Feature importance feedback with Deep Q process in ensemble-based metaheuristic feature selection algorithms
Authors: Potharlanka Jhansi Lakshmi , M Nirupama Bhat 
Published: February 2024

AbstractFeature selection is an indispensable aspect of modern machine learning, especially for high-dimensional datasets where overfitting and computational inefficiencies are common concerns. Traditional methods often employ either filter, wrapper, or embedded approaches, which have limitations in terms of robustness, computational load, or capability to capture complex interactions among features. Despite the utility of metaheuristic algorithms like Particle Swarm Optimization (PSO), Firefly Algorithm (FA), and Whale Optimization (WOA) in feature selection, there still exists a gap in efficiently incorporating feature importance feedback into these processes. This paper presents a novel approach that integrates the strengths of PSO, FA, and WOA algorithms into an ensemble model and further enhances its performance by incorporating a Deep Q-Learning framework for relevance feedbacks. The Deep Q-Learning module intelligently updates feature importance based on model performance, thereby fine-tuning the selection process iteratively. Our ensemble model demonstrates substantial gains in effectiveness over traditional and individual metaheuristic approaches. Specifically, the proposed model achieved a 9.5% higher precision, an 8.5% higher accuracy, an 8.3% higher recall, a 4.9% higher AUC, and a 5.9% higher specificity across multiple software bug prediction datasets and samples. By resolving some of the key issues in existing feature selection methods and achieving superior performance metrics, this work paves the way for more robust and efficient machine learning models in various applications, from healthcare to natural language processing scenarios. This research provides an innovative framework for feature selection that promises not only superior performance but also offers a flexible architecture that can be adapted for a variety of machine learning challenges.
A community-based cross-sectional study of dietary composition and associated factors among tuberculosis patients in China
Authors: Zheng Yan , Chen Hui , Zhang Canyou , Hu Dongmei , Zhao Fei , Piao Wei , Li Shujuan , Liang Dabin , Luo Zongye , Fan Yueling , Gao Jianwei , Cheng Jun , Yu Dongmei 
Published: February 2024

AbstractTo determine the dietary structure and its associated factors of tuberculosis (TB) patients in the community. This cross-sectional study analysed the dietary intake of 300 TB patients in two impoverished counties in China. Food intake was collected by using food frequency and two consecutive 24-h dietary review (24hdr) methods. The dietary composition and dietary structure of TB patients were compared with China’s 2022 Dietary Reference Intake (DRIs) and the average reference value of dietary composition (ARC) in China in 2013. Binary logistic regression models were used to explore the factors associated with inadequate intake of animal food, insufficient protein and fat energy supply in patients with TB. The daily intake of various foods in TB patients was measured and the results were as follows: staple foods—median 372.12 g (interquartile range [IQR] 315.87 g); vegetables—median 200.00 g (IQR 205.55 g); fruits—median 20.22 g (IQR 36.82 g); animal foods—median 100.82 g (IQR 180.74 g); dairy products—median 0.00 g (IQR 0.00 g); nuts—median 17.10 g (IQR 29.75 g). The average daily intakes of vegetables, fruits, animal food, dairy products, soy and nuts were lower than those recommended by the DRIs (P < 0.01). Compared to women, men consumed more whole grains and mixed legumes, but less fruit. The dietary structures, including food and nutrient supply for energy, protein and fat, were significantly different in 300 patients compared with DRIs or ARC values. Inadequate rates of animal food intake were observed in 54.85% of men and 59.57% of women. Protein undersupply rates were 66.02% in men and 56.38% in women, while fat undersupply rates were 52.91% in men and 52.13% in women. The study revealed that being 18–49 years old, being the Han nationality, having less than 2 h of physical activity per day on average, and eating twice a day were risk factors for inadequate animal protein intake, protein energy deficiency and fat energy deficiency. TB patients from impoverished counties in China have inadequate intake of several food categories and insufficient protein and fat energy supply, correlating with multiple factors in socio-demographics, behavioral practices, and TB disease. To improve the nutritional status of TB patients, urgent public health actions, especially carrying out nutritional screening and evaluation once diagnosed, developing individualized nutritional support treatment plans, strengthening dietary nutritional health education and intervention, and advocating for enhanced nutritional support, should be taken.
Chloride electrode composed of ubiquitous elements for high-energy-density all-solid-state sodium-ion batteries
Authors: Tanibata Naoto , Nonaka Naoki , Makino Keisuke , Takeda Hayami , Nakayama Masanobu 
Published: February 2024

AbstractInexpensive and safe energy-storage batteries with high energy densities are in high demand (e.g., for electric vehicles and grid-level renewable energy storage). This study focused on using NaFeCl4, comprising ubiquitous elements, as an electrode material for all-solid-state sodium-ion batteries. Monoclinic NaFeCl4, expected to be the most resource-attractive Fe redox material, is also thermodynamically stable. The Fe2+/3+ redox reaction of the monoclinic NaFeCl4 electrode has a higher potential (3.45 V vs. Na/Na+) than conventional oxide electrodes (e.g., Fe2O3 with 1.5 V vs. Na/Na+) because of the noble properties of chlorine. Additionally, NaFeCl4 exhibits unusually high deformability (99% of the relative density of the pellet) upon uniaxial pressing (382 MPa) at 298 K. NaFeCl4 operates at 333 K in an electrode system containing no electrolyte, thereby realizing next-generation all-solid-state batteries with high safety. A high energy density per positive electrode of 281 Wh kg−1 was achieved using only a simple powder press.
Land and sea transport options for the installation of green artificial reefs (GARs) in shallow waters: a Galician case study
Authors: Cartelle Barros Juan José , Munín-Doce Alicia , Castro-Santos Laura , Lamas Javier , Carral Luis 
Published: February 2024

AbstractThe aim of the present paper is to propose a new methodology for the production and installation of green artificial reefs (GARs) in shallow waters, with special attention to the transport stages. The process includes both onshore (manufacturing, road transport and unload at port) and offshore (load at port, sea transport, positioning, and deployment tasks) stages. Two different types of truck were analysed for the road transport. Furthermore, three different options were considered for sea transport: a workboat powered by liquefied natural gas, a barge using diesel (0.1% sulphur) as fuel, and an electric specific design barge. A simulation tool called AGARDO (Automatic Green Artificial Reef Deploy Optimisation) was developed for such a purpose. An estuary located in Galicia (North-West of Spain), where 180 GAR units must be installed, has been considered as case study. AGARDO was used to obtain results concerning process total time, equivalent CO2 emissions and costs for different scenarios. Consequently, the use of the proposed methodology allows the decision-maker to select the best option in terms of costs, emissions and time. AGARDO can be easily adapted to other case studies, with different onshore and offshore options.
Patient perspectives and experiences with psilocybin treatment for treatment-resistant depression: a qualitative study
Authors: Breeksema Joost J. , Niemeijer Alistair , Krediet Erwin , Karsten Tilman , Kamphuis Jeanine , Vermetten Eric , van den Brink Wim , Schoevers Robert 
Published: February 2024

AbstractPsilocybin is the most researched classic psychedelic for Treatment-Resistant Depression (TRD). While optimizing set and setting are considered essential for efficacy and safety, patient perspectives on these aspects have rarely been investigated. To address this knowledge gap, the current paper explored the experiences of 11 TRD patients (8 women, 3 men) participating in a double-blind randomized clinical trial with a single session of oral (1, 10 or 25 mg) psilocybin treatment. After qualitative analysis, three major themes were identified: (1) challenges with trust-building and expectation management; (2) navigating the experience; and (3) the need for a more comprehensive treatment. Subthemes of the first theme include a general distrust in mental healthcare, trust in study therapists, limited time for preparation, and managing expectations. The second theme included the following subthemes: trusting to surrender, profound and overwhelming experiences, and music as a guide. The third theme addressed a desire for multiple psilocybin sessions, and challenges with sensemaking. Patients’ perspectives provided important insights into potential optimization of psilocybin treatment of TRD, including individualized preparation, investment in trust-building, offering additional psilocybin sessions, providing access to sustained (psycho)therapy with trusted therapists, and personalizing treatment approaches, which may also enhance real-world adaption of these treatments.
Preference of Pentalonia nigronervosa for infected banana plants tends to reverse after Banana bunchy top virus acquisition
Authors: Murhububa Ignace Safari , Bragard Claude , Tougeron Kévin , Hance Thierry 
Published: February 2024

AbstractPentalonia nigronervosa Coquerel (Hemiptera: Aphididae) is the vector of the Banana Bunchy Top Virus (BBTV), the most serious viral disease of banana (Musa spp.) in the world. Before acquiring the virus, the vector is more attracted to infected banana plants in response to the increased emissions of volatile organic compounds (VOCs). Here, we test the hypothesis that BBTV acquisition directly modifies the preference of P. nigronervosa for infected banana plants, and that the change in preference results from the alteration of the organs linked to the VOC detection or to the behaviour of the vector. We found that the preference of P. nigronervosa for infected banana plants reverses after virus acquisition in dessert banana, while it remains similar between healthy and infected banana plants before and after the acquisition of BBTV. At the same time, aphids reared on infected bananas had smaller forewing areas and hind tibia length than aphids reared on healthy bananas, although the number of secondary rhinaria on the antennae was lower on dessert banana-reared aphids than plantain-reared aphids, this was not affected by the infection status of the aphid. These results support the "vector manipulation hypothesis—VMH" of pathogens to promote their spread. They have implications for the BBTV management.
Novel pyridine bearing pentose moiety-based anticancer agents: design, synthesis, radioiodination and bioassessments
Authors: Mehany Marwa M. , Hammam Olfat A. , Selim Adli A. , Sayed Galal H. , Anwer Kurls E. 
Published: February 2024

AbstractPyridine compounds are one of the most important heterocyclic derivatives showing wide ranges in biological and pharmacological activities. Green chemistry eliminates or reduces the generation of hazardous compounds. It prevents pollution at a molecular level. The microwave technique used in heterocyclic compound synthesis is also an important branch of green chemistry techniques. In this study, we report designing and synthesizing a new pyridine-bearing pentose moiety via a one-pot multicomponent reaction using D-glucose and also investigate its behavior and reactivity toward some simple and heterocyclic amino derivatives. The chemical structures of the synthesized compounds were characterized and tested for their cytotoxic activities. Some of the test compounds exhibited slight to high cytotoxic activities against Caco2 (colon cancer) cells, HepG2 (hepatocellular carcinoma) cells and MCF-7 (human breast cancer) cells by MTT assay. The results showed clearly that compound 4 and compound 8 displayed strongest to moderate cytotoxic activity against the HepG2, Caco2 and MCF-7 respectively and compound 1 showed good activity against MCF-7 in comparison to the standard anticancer drug doxorubicin. These data were by cytopathological examination. An in-vivo radioactive tracing study of compound 4 proved its targeting ability to sarcoma cells in a tumor-bearing mice model. Our findings suggest that the synthesized compounds may be promising candidates as novel anticancer agents.