bluuebunny/crossref_metadata_2025_split huggingface dataset:
IQGAP1 enhances EGFR signaling by Promoting Oligomerization and Preventing Degradation
Authors: Yerramilli V. Siddartha , Reisinger Jessica L. , Hemmerlin Rachel M. , Lindberg Samantha K. , Plante Karin , Ross Alonzo H. , Scarlata Suzanne , Gericke Arne 
Published: November 2023

Abstract
IQGAP1 is a large, multi-domain scaffold that connects and modulates different signaling networks including the one initiated by epidermal growth factor (EGF)by localizing and concentrating pathway components to promote activation. In this study, we have used live cell fluorescence imaging methods along with other biochemical techniques to follow the mechanisms used by IQGAP1 to enhance EGF signaling. We show that IQGAP1 enhances EGF signaling by promoting the oligomerization of its receptor, EGFR upon EGF addition along with concurrent IQGAP oligomerization. Using cellular markers, we find that IQGAP1 promotes the plasma membrane localization of EGFR and promotes association to one of its phosphoinositide lipid pathway ligands, PI(3, 4, 5)P3. Additionally, we find that binding of EGFR to IQGAP1 protects EGFR from lysosomal degradation. Taken together, our results show that IQGAP1 enhances and prolongs EGF-mediated pathway progression.
How to diagnose an overcrowded emergency department from its EHRs? Enhancing opportunities and challenges of real-world data from a whole-system perspective
Authors: Marzano Luca , Darwich Adam S. , Jayanth Raghothama , Sven Lethvall , Falk Nina , Bodeby Patrik , Meijer Sebastiaan 
Published: November 2023

Abstract

Emergency department overcrowding is a complex problem that persists globally. Data of visits constitute an opportunity to understand it. However, the gap between the collected information and the real-life clinical processes, and the lack of a whole-system perspective, still constitutes a relevant limitation. An analytical pipeline was developed to analyse one-year of production data following the patients that came from the ED (n = 49,938) at Uppsala University Hospital (Uppsala, Sweden) by involving clinical experts in all the steps of the analysis. The key internal issues to the ED were the high volume of generic or non-specific diagnoses from non-urgent visits, and the delayed decision regarding hospital admission caused by several imaging assessments and lack of hospital beds. Furthermore, the external pressure of high frequent re-visits of geriatric, psychiatric, and patients with unspecified diagnoses dramatically contributed to the overcrowding. Our work demonstrates that through analysis of production data of the ED patient flow and participation of clinical experts in the pipeline, it was possible to identify systemic issues and directions for solutions. A critical factor was to take a whole systems perspective, as it opened the scope to the boundary effects of inflow and outflow in the whole healthcare system.
Assessing and optimizing large language models on spondyloarthritis multi-choice question answering (SpAMCQA): study protocol for a bilingual evaluation benchmark
Authors: Wang Anan , Wang Xiangyang , Ji Xiaojian , Wu Yunong , Hu Jiawen , Zhang Fazhan , Zhang Zhanchao , Pu Dong , Ma Shikui , Dong Jing , Liu Qiang , Li Kunpeng , Teng Da , Li Tao 
Published: November 2023

Abstract
Background
In recent years, the deployment of sophisticated technological solutions in the medical domain has garnered increasing interest. Through the lens of Artificial Intelligence (AI), the medical field stands on the cusp of a significant paradigm shift, one that holds the promise of elevating healthcare delivery to a pinnacle of excellence, driven by the synergy between human expertise and machine intelligence. This research aims to develop a stringent evaluation criterion for assessing large language models’ accuracy in addressing queries related to spondyloarthritis. It involves creating a dataset of disease-relevant multiple-choice questions for large language models (LLMs), ensuring they understand, recall, and interpret the necessary medical knowledge accurately. Additionally, this study seeks to refine and optimize large language models to deliver state-of-the-art performance on this dataset and provide exemplary technical services for AI-assisted diagnosis and treatment of spondyloarthritis.
Methods
We have established a rigorous benchmark consisting of 122 meticulously crafted multiple-choice questions on spondyloarthritis, developed with the collaboration of clinical experts. These questions have undergone thorough revision to ensure their applicability in the accurate evaluation of large language models' performance within real-world diagnostic and therapeutic settings. Our approach includes the selection and fine-tuning of the most promising publicly available foundational models against a comprehensive dataset. The model that demonstrates superior performance on this benchmark will undergo additional training. In a subsequent phase, records from over 80,000 real-world inpatient and outpatient cases at Chinese PLA General Hospital will serve to further train the LLMs, employing techniques such as Supervised Fine-Tuning and Low-Rank Adaptation. We will assess the models' generated responses for their precision and evaluate their reasoning processes using the Safety, Usability, and Smoothness metric.
Discussion
The SpAMCQA benchmark has been meticulously crafted to assess the effectiveness of large language models in managing clinical issues relating to spondyloarthritis. It serves as a tool to gauge the performance capabilities of our self-developed model, SpARobotGPT, within this medical specialty. Demonstrating potential, LLMs are poised to augment clinical decision-making, enhancing the diagnosis and treatment of spondyloarthritis. The benchmark dataset and experimental results are slated to be announced in the near future.
Meta Learning for Enhanced Web Security Against Malicious URLs
Authors: Singh Sanskriti Sanjay Kumar , Menon Vishnu , A Sajidha S , M Nisha V , A Sheik Abdullah , M Nivedita , Mairaj Aakif 
Published: November 2023

Abstract
The identification of malicious Uniform Resource Locators (URLs) plays a pivotal role in strengthening network and cyber security. Over the years, the Internet has increasingly become a breeding ground for a multitude of cybercrimes. Malicious URLs can disrupt network performance, compromise data integrity, and introduce vulnerabilities into the system, impacting the network’s overall security and reliability. Taking precautions and implementing preventative techniques is crucial for shielding users from cyberattacks. This study utilizes meta-learning, which is a machine learning technique that learns from the predictions of other machine learning algorithms to make better decisions. For a comprehensive evaluation, the ISCX-URL-2016 dataset was utilized, a resource curated by the Canadian Institute for Cyber Security. The proposed approach focuses on utilizing URL strings as the primary source of information for detecting malicious content.The performance of different machine learning algorithms, including Histogram-based Gradient Boosting Classification Tree, XGBoost Classifier, CatBoost Classifier, Random Forest Classifier and more, were compared for the detection of malicious URLs. The two best performing base classifiers were identified and evaluated as potential meta-classifiers. Various combinations of base classifiers were then tested in conjunction with these two selected meta-classifiers. A significant improvement in the accuracy was observed and the best accuracy of 98.25% was achieved using All Base Classifiers + Meta Classifier XGBoost. Closely followed by the Three Best Base Classifiers + Meta Classifier XGBoost, which achieved an accuracy of 98.2%.
Spatio-temporal Patterns of Recreational Boating Use in a Caribbean Marine Protected Area
Authors: Fernández-Vázquez Iremar , Padilla-Montalvo James A. , Hernández-López William J. , López-Ocasio Darien , López-Marrero Tania del Mar , Cruz-Motta Juan J. 
Published: November 2023

Abstract
Marine Protected Areas (MPAs) defined by The International Union for Conservation of Nature as areas of Ocean set aside for long-term conservation aims are a growing management resource in the world. But their expansion along with the rising population and growing access to goods and services means the number of users within MPAs is increasing. With more people using MPAs, new impacts and pressures are being introduced to marine ecosystems. An important pressure is that of recreational boating which can incur chemical and mechanical impacts to the marine environment. In this study, we focused on describing the spatial and temporal patterns of recreational boating within La Parguera Natural Reserve, an MPA in the Caribbean Island of Puerto Rico. In addition, we calculated the optimal boating use and calculated percentage of use at peak usage. We determined the optimal number of boats for 6 cays in the reserve and found most of the cays (Caracoles, Mata la Gata, Enrique and Collado) are being subjected to a high intensity of use, experiencing up to 857% of their optimal capacity during peak usage. These findings underscore the urgency of implementing management measures to minimize the environmental impacts of recreational boating while still allowing for sustainable social use within the system.
Carbon Sink potentiality of Avicennia marina along the Egyptian Red Sea Coast
Authors: Shawky Ramadan 
Published: November 2023

Abstract
Background Climate change is a global concern caused by increasing concentrations of carbon dioxide in the atmosphere, with many detrimental consequences. A potential approach to counter acting the effects of climate change is to actively remove carbon dioxide from the atmosphere. the biomass without damaging the vegetation.
Results Based on the allometric equation, the biomass has the highest value in wadi El-Gimal for the growth stages sapling, there for the largest number of sapling found in this area. Carbon sequestration in four different locations of Avicennia marina was estimated. The highest carbon storage in stands of Abu Ghuson was 30 kg/hectare than in these in other sites. the carbon dioxide absorption of trees in Sharm El-Bahary was higher than in the other studied sites is 24.8kg/hectare.
Conclusion These estimates suggest high Biomass and carbon sequestration potential despite the relatively small area of the Avicennia marina along the Red Sea Coast.
Risk factors for meningitis after craniotomy for gliomas: A 8-year experience from a tertiary medical center
Authors: Zhang Xin , Zheng Zhiyao , Guo Xiaopeng , Wang Hai , Gong Le , Liu Delin , Yang Tianrui , Song Yixuan , Huang Hongmin , Cao Yaning , Wang Yu , Guo Fuping , Ma Wenbin 
Published: November 2023

Abstract
Object: Meningitis is a diffuse inflammation that occurs on the meninges. Due to the fact that glioma surgery requires manipulation of the brain parenchyma and the expression of inflammatory mediators, there is often a possibility of meningitis occurring after surgery. Previous studies on meningitis related to neurosurgery have uniformly explored the risk factors for postoperative meningitis in all neurosurgery surgeries that require craniotomy, but have not explored the risk factors and clinical characteristics of postoperative meningitis in a single disease.
Methods: We included patients who underwent glioma resection from January 2015 to March 2023, systematically recorded population characteristics, clinical, surgical, laboratory, microbiological, and survival data, analyzed high-risk factors for postoperative meningitis, summarized cerebrospinal fluid characteristics, antibiotic use, and explored whether meningitis affects the long-term prognosis of glioma patients after surgery.
Results:All 337 patients underwent glioma resection, and 61 patients (18.1%) developed meningitis after surgery. Among them, 3 patients (0.9%) had positive cerebrospinal fluid pathogen culture, including Staphylococcus haemolyticus, Staphylococcus epidermidis, and Acinetobacter baumanii. Ventricle Opening, post-op other systemic infections, post-op maximum cavity diameter, and peripheral blood Monocyte% are independent risk factors for postoperative meningitis. The median protein content in cerebrospinal fluid of patients with meningitis is 1.73g/L ([IQR] 1.03-3.06), the median glucose content is 2.7mmol/L ([IQR] 1.90-3.70), and the median WBC is 1478×106cells/L ([IQR] 455-4198×106), with a median percentage of multinucleated cells of 83.7% ([IQR] 69.30% -90.80%). Meropenem and Vancomycin are the most commonly used antibiotics, with an average usage time of 7.79 days and 8.41 days, respectively. Survival analysis suggests that the occurrence of meningitis does not affect the long-term prognosis of glioma patients after surgery.
Conclusions: This study separately explored the risk factors for meningitis in patients with glioma after surgery, instead of all diseases which need craniotomy，and summarized their cerebrospinal fluid characteristics and antibiotic use. Although meningitis is only one of the possible complications during the treatment of gliomas, we believe that this will make a certain contribution to neurosurgeons' individualized prevention, diagnosis, and treatment of patients in the diagnosis and treatment of gliomas.
Mendelian Randomization Reveals the Dietary Fat-Lung Adenocarcinoma Connection: Insights from GWAS Data
Authors: Xu Zhanyu , Zheng Tiaozhan , Lu Hongting , He Dongming , Zheng Zhiwen , Li Shikang 
Published: November 2023

Abstract
Background: Lung cancer has a high mortality rate and lung adenocarcinoma (LUAD) is one of the most common types of lung cancer. A high-fat diet had been reported to be connected with the development of the LUAD. Thus, this study aimed to investigate the causal relationship between a high-fat diet and LUAD using Mendelian randomization (MR) analysis.
Methods: The study conducted MR analysis by using critically ill patients with the LUAD (n=18336, single nucleotide polymorphism (SNP)=8,881,354). Ratio of linoleic acid (LA) to total fatty acids (n=114,999, SNP=12,321,875), total cholesterol (n=115,078, SNP=12,321,875), and ratio of saturated fatty acids (SFA) to total fatty acids (n=114,999, SNP=12,321,875) summary statistics were obtained from the Open Genome Wide Association Study (GWAS) database. Exposure factor reading and instrumental variable (IVs) screening were performed by the TwoSampleMR function extract_instruments, and independent SNPs with p < 5×10-8 were selected as IVs. Notably, SNPs with linkage disequilibrium (LDA) were excluded by performing an aggregation procedure with r2=0.001 and kb=10,000 kb. The study combined different algorithms (Weighted median, Simple mode, Inverse variance weighted, MR Egger, Weighted mod) to perform MR analysis, and the results were mainly referred to Inverse variance weighted (IVW).
Results: Univariate MR analysis showed that both ratio of SFA to total fatty acids as well as total cholesterol were consequently connected with the development of LUAD and were risk factors (p<0.05, odd ratio (OR)>1). Ratio of LA to total fatty acids was consequently connected with the occurrence of LUAD and was a protection factor (p<0.05, OR<1). Moreover, multivariate MR analysis showed that total cholesterol was a significant risk factor (p<0.05). The ratio of SFA to total fatty acids was a risk factor and ratio of LA to total fatty acids was a safety factor.
Conclusion: Total cholesterol, ratio of saturated fatty acids to total fatty acids, and ratio of linoleic acid to total fatty acids were causally connected to the LUAD.
Evaluation of the Effect of Process Parameters on Mass Efficiency in Direct Metal Deposition of Inconel 718 with Response Surface Methodology
Authors: Afshari Mahmoud , Khandaei Mehrdad , Razavi Reza Shoja , Barekat Seyed Masoud 
Published: November 2023

Abstract

In this article, the parameters affecting the net mass of material deposited on the surface per unit of time (real mass flow rate) and the ratio of the mass of powder added to the surface to the mass of powder exiting the nozzle (mass efficiency) are discussed. These parameters include laser power, laser scanning speed, and powder injection rate. The results show that the laser power has the greatest effect on mass efficiency, so the scanning speed and the powder injection rate from the nozzle are in the next importance respectively. Finally, statistical optimization was done to achieve the highest mass efficiency and the fastest part manufacturing speed. The predictions of the statistical model were in good agreement with the experimental results.
Transcriptome analysis reveals the molecular mechanism of differences in growth between photoautotrophy and heterotrophy in Chlamydomonas reinhardtii
Authors: Chen Jing , Chen Yuanhao , He Weiling , Liang Honghao , Hong Ting , Li Tangcheng , Du Hong 
Published: November 2023

Abstract

Background
Chlamydomonas reinhardtii can grow photoautotrophically and heterotrophically, and is the typical model species for heterotrophy increasingly cultured in commercial cultivation. By observing their growth changes, transcriptomic analysis and molecular regulation, we investigated the molecular mechanism of differences in growth from photoautotrophy 12h (P12h) to heterotrophy 12h (H12h).
Results
We observed changes in the cell numbers, OD750, Fv/Fm, and total chlorophyll content of photoautotrophy and heterotrophy during 10 days and they were significantly different. These indicators were further analyzed between photoautotrophy 12h (P12h) and heterotrophy 12h (H12h), and the P12h group was significantly higher than the H12h group. The transcriptome data demonstrated that a total of 2,970 differentially expressed genes (DEGs) were identified between the P12h and H12h groups. There were 10 DEGs involved in the photosynthesis and carbon fixation metabolic pathway, 18 DEGs involved in the glycolysis and the TCA cycle metabolic pathway, 8 DEGs related to the pyruvate metabolic pathway, and 17 DEGs related to the oxidative phosphorylation. To explore the relationship between DEGs and the major metabolic pathways, the relative expression levels of marker genes and key enzyme activities were examined. The relative expression levels of MDH, SDH, ATPase and SSS were increased significantly from P12h and H12h. NAD-MDH and SDH activity of the H12h group was significantly higher than the P12h group.
Conclusions
Our study exhibited characteristics of early fermentation in Chlamydomonas reinhardtii. Based on analysis of transcriptome and biochemical, we speculated the nutrient and energy metabolism models and partly elucidated the molecular mechanism of both the heterotrophic and autotrophic Chlamydomonas reinhardtii. Our study provides preliminary evidence for the differences in the growth of photoautotrophy and heterotrophy in algae.
Integrated bioinformatics analysis screened the key genes and pathways of idiopathic pulmonary fibrosis
Authors: Wu Juan , Wei Yangyang , Kang Hong , Yu Xiao , Wei Shuting , Xue Ting , Kong Xiaomei 
Published: November 2023

Abstract
To perform bioinformatics analysis on the idiopathic pulmonary fibrosis (IPF) dataset to explore the important core genes and pathways related to IPF. The GSE173355 and GSE173356 dataset were downloaded from the NCBI-GEO database. The limma package was used to screen differentially expressed genes (DEGs) and differentially methylated sites. Functional enrichment analysis was performed for DEGs and differentially methylated sites, respectively. The immune-related scores, proportion and GSVA enrichment score of immune cells in IPF and control were analyzed. The differentially expressed immune-related genes (IRGs) were obtained, their protein-protein interaction (PPI) network was analyzed by the STRING database, and the core genes and subnetworks were screened using Cytoscape software. Finally, we validated in the the bleomycin-induced IPF mouse model. A total of 4083 DEGs and 4933 differentially methylated sites were screened between IPF and control, and both DEGs and differentially methylated sites were similarly enriched in multiple pathways such as the Rap1 pathway. And a total of 8 genes whose expression levels were negatively regulated by methylation were screened by gene and methylation association analysis. In addition, the immune-related score of the IPF group was significantly lower than that of the control group, and there were significant differences in the proportion and GSVA enrichment score of immune cells between IPF and control. A total of 356 differentially expressed IRGs were screened out from DEGs, and 10 key genes and 3 core subnetworks were identified by PPI analysis. The verification results of RT-qPCR showed the reliability of most of the conclusions in BLM model. These results could provide new ideas for IPF pathogenesis and new treatment methods, but still need further functional verification.
Optimisation of Biobased Adhesives Synthesis From Gelatine and Euphorbia Abysinica Latex
Authors: Alemu Lioul Getachew , Tesfaye Tamrate 
Published: November 2023

Abstract
This investigation is an attempt of extracting bio based adhesives from gelatine and plant latex to overcome the negative effects of synthetic adhesive. The bio based adhesive was extracted with mixing plant resins from Euphorbia Abyssinica as additives with gelatine through optimisation. The factors in the synthesis of bio based adhesive were temperature, time, and concentration with level of 50-60oc, 30–60 Min, and 50–75% gelatine; and the optimum level was found 500C, 45min, and 75% respectively with optimum result of 282.12 gram gel strength. The characteristics of the resulted bio adhesive were 6.25cp, 6.85, and 11.53% of viscosity, pH, and moisture content values respectively. The performance of the bio adhesive was examined interms of peel and shear strength and it has an average value of 6.645N/mm and 198.1N respectively. This research is effective way of overcoming environmental burden from synthetic adhesives by the production of bio adhesives from gelatine and plant resin.
Selection of input variables for electricity price forecast
Authors: Wei Xingyuan 
Published: November 2023

Abstract
The selection of input variables is vital for performance of electricity price forecast model when artificial neural network (ANN) is used to forecast electricity price. However, the selection of input variables mainly is based on experience and heuristics in current studies. This paper aims to compare three categories methods, (1) the relevance between input variables and electricity price, (2) the relationship between different input variables and (3) the structure of ANN, on selecting input variables in terms of electricity price. In order to avoid influence of structure of ANN on performance of selecting input variables, the back-propagation (BP) network and Elman network that represent different structure of ANN respectively are used to forecast electricity price. The real electricity market data from Nordic and California electricity market is used to examine the performance of electricity price forecast model, the result shows that the electricity price forecast model formed using input variables selected by category, the relevance between input variables and electricity price, has the best performance of electricity price forecast.
Blowup of Regular Solutions and C 1 Solutions for Free Boundary Problem of Two-fluid Euler-Poisson Equations with a background constant in R n
Authors: Wang Jingjie 
Published: November 2023

Abstract
The compressible two-fluid isentropic Euler-Poisson equations are important models in semiconductor physics and plasmas. In this paper, we consider the characteristic curve to obtain the growth rate of the solutions with free boundary, and successfully give the new blowup results of regular solutions for 1 < γ < 2 or 1 < β < 2 or C 1 solutions for γ ≥ 2 and β ≥ 2 of the radially symmetrical two-fluid Euler-Poisson equations with a background constant Λ in R N (N ≥ 2). By using the integration method and assuming that the appropriate initial functional is sufficiently large, we show the singularity of the solutions to two-fluid Euler-Poisson equations in finite time.
Mathematics Subject Classification (2010). 76T10, 35R35, 35B44, 74G40.