bluuebunny/crossref_metadata_2025_split huggingface dataset:
Integrative Identification of Angiogenesis-Related Genes for Predicting Immune Interaction and Prognosis in LUAD
Authors: Yu Weijie , Miao Zhoulin , Ainiwaer Julaiti , Qiao Bingzhang , Jumai Kawuli , Sheyhidin Ilyar 
Published: January 2023

Abstract
Background
Tumor microenvironment is characterized by angiogenesis. A tumor's microenvironment (TME) and its interactions with immunotherapy influence immunotherapy's effectiveness. In the study of Lung adenocarcinoma (LUAD), there is currently no clear link between multiple angiogenesis genes and clinical results, immune cell infiltration, and immunotherapy.
Methods
Clinical information and corresponding Gene expression were downloaded from the GEO and TCGA. Thirty-six angiogenesis-related genes (ARGs) were comprehensively evaluated, and correlations between angiogenesis and patterns of transcription and prognosis. The immune difference shows different functions and Infiltration in the sub-cluster. KEGG pathway and GO enrichment analyses were conducted based on distinct clusters. ARG_score was established to quantify the angiogenic subtype of each patient. Finally, we assessed their value in predicting prognosis and treatment response in the different risk groups.
Results
The mutations of ARGs in LUAD specimens were discussed at the genetic level. We identified two distinct molecular subtypes and observed that ARG mutations were associated with clinical characteristics, prognosis, and TME of patients. Next, an ARG_score predicting overall survival (OS) was established, confirming its robust predictive power for patients with LUAD. Moreover, a highly reliable Nomogram was created. Low risk score demonstrated better OS. In addition, the ARG_score was shown to be significantly correlated with cancer stem cell index and drug sensitivity. FSTL3 is considered potential target gene.
Conclusion
In general, we were the first to characterize the prognosis of ARGs in patients with LUAD. Angiogenesis may play an essential role in the development of LUAD. This characterization may assist in clarifying the features of angiogenesis in TME and enable the exploration of more cost-effective immunotherapy strategies.
A new (n+1)-dimensional generalized Kadomtsev-Petviashvili equation: Integrability characteristics and localized solutions
Authors: Xu Gui-Qiong , Wazwaz Abdul-Majid 
Published: January 2023

Abstract
In this paper, an integrable generalization of the Kadomtsev-Petviashvili (KP) equation in arbitrary spatial dimension is proposed. Firstly, the singularity manifold analysis is performed to prove that the (n+1)-dimensional KP equation with general form is Painleve integrable. Secondly, combining the truncated Painleve expansion and binary Bell polynomial approach, the integrable characteristics of the (n+1)-dimensional KP equation are derived systematically, including N-soliton solution, bilinear Backlund transformation, the associated Lax pair as well as infinite conservation laws. Moreover, various types of localized solutions can be constructed starting from the N-soliton solutions. The abundant interactions including overtaking solitons, head-on solitons, one-order lump, two-order lump, breather, breather-soliton mixed solutions are analyzed by some graphs.
Overcoming lattice mismatch for heterostructures
Authors: Chan Wen Kiat , Yu Zhongzheng , Zhou Donglei , Ye Junzhi , Tew Alasdair , Turnhout Lars van , Rao Akshay , Tan Timothy 
Published: January 2023

Abstract
The formation of core-shell heterostructures allows direct contact for more efficient energy transfer and requires exquisite lattice match. Lattice mismatch is one of the most challenging obstacles for combining two components with different phases. In this work, we develop a strategy to successfully overcome the limitation of lattice mismatch for the first time andgrow α-phase lead halide perovskites (LHPs) onto β-phase lanthanide nanoparticles (LnNPs) by seeding ultrasmall sub-5 nm LnNPs. This LnNP@LHP heterostructure enables more efficient two-way energy transfer within the heterostructures. Downconversion and upconversion emissions can be achieved under ultraviolet and near-infrared excitation, respectively. In addition, LHP has a high tolerance for defects and will passivate LnNPs for enhanced fluorescent performance. We identify and prove that size instead of phase is critical to overcome the lattice mismatch. Our strategy has uncovered fresh insights into the key factor of direct epitaxial growth for heterostructures and we believe the current synthesis strategy for high-quality heterostructures will have strong application potential in optoelectronics, anticounterfeiting and light detection etc.
Hyperglycemia and glucose variability are associated with worse survival in mechanically ventilated COVID-19 patients: the prospective Maastricht Intensive Care Covid Cohort
Authors: Herpt Thijs T.W. van , Rosmalen Frank van , Hulsewé Hendrica P.M.G. , Horst-Schrivers Anouk N.A. van der , Driessen Mariëlle , Jetten Robin , Zelis Noortje , de Galan Bastiaan E. , Kuijk Sander M.J. van , Horst Iwan C.C. van der , Bussel Bas C.T. van 
Published: January 2023

AbstractData on hyperglycemia and glucose variability in relation to diabetes mellitus, either known or unknown in ICU-setting in COVID-19, are scarce. We prospectively studied daily glucose variables and mortality in strata of diabetes mellitus and glycosylated hemoglobin among mechanically ventilated COVID-19 patients. We used linear-mixed effect models in mechanically ventilated COVID-19 patients to investigate mean and maximum difference in glucose concentration per day over time. We compared ICU survivors and non-survivors and tested for effect-modification by pandemic wave 1 and 2, diabetes mellitus, and admission HbA1c. Among 232 mechanically ventilated COVID-19 patients, 21.1% had known diabetes mellitus, whereas 16.9% in wave 2 had unknown diabetes mellitus. Non-survivors had higher mean glucose concentrations (ß 0.62 mmol/l; 95%CI 0.20–1.06; P = 0.004) and higher maximum differences in glucose concentrations per day (ß 0.85 mmol/l; 95%CI 0.37–1.33; P = 0.001). Effect modification by wave, history of diabetes mellitus and admission HbA1c in associations between glucose and survival was not present. Effect of higher mean glucose concentrations was modified by pandemic wave (wave 1 (ß 0.74; 95% CI 0.24–1.23) mmol/l vs. wave 2 ß 0.37 (95%CI 0.25–0.98) mmol/l). Hyperglycemia and glucose variability are associated with mortality in mechanically ventilated COVID-19 patients irrespective of the presence of diabetes mellitus.
Shift in SAR to ISR during the Rice- R. Solani interaction mediated by Streptomyces hyderabadensis confers sheath blight resistance in susceptible genotype
Authors: P Arun Y , U Krishnaraj P , K Prashanthi S , Kambrekar D N , Bagewadi Basavaraj 
Published: January 2023

Abstract
Rice sheath blight disease is caused by the necrotrophic pathogen Rhizoctonia solani Kuhn (teleomorph; Thanatephorus cucumeris). Several studies have reported the disease suppression mechanisms in resistant varieties based on innate and systemic acquired resistance (SAR) mechanisms. The resistant varieties turn susceptible due to the intelligence of pathogen strains to mimic plant defense signaling mechanisms. An alternative and ecofriendly approach to tackle the negative effects of plant-pathogen interaction is the application of bio-control agents. Actinobacteria is known for production of secondary metabolites under stress that initiates pre-signaling to enable induced immunity at early plant stages to tackle the pathogen attack during the later stages of plant development. The current study is focused on understanding of mechanisms that provide resistance to rice plants against R. solani in presence of actinobacteria, Streptomyces hyderabadensis, based on biochemical and mRNA/transcript level analysis. The sheath blight incidence was significantly reduced and the disease score was maintained at 1 (lesion height less than 10%) compared to pathogen control. Biochemical analysis revealed that the actinobacterial inoculation enhanced the levels of phenyl ammonia lyase, phenol, polyphenol oxidases, catalases and peroxidases during the tripartite interaction that provided initial resistance and protection from ROS generated during pathogen infection through detoxification process. During the interaction, higher expression of chitinase gene, improvement in chlorophyll content by the expression of chlorophyll a-b binding protein, maintenance of plant overall development by maintaining the balance of melatonin production, lower expression of SAR supportive genes (PAL, ICS, GST) at the later intervals, expression of signaling proteins (14-3-3 like protein GF14-E) to activate the defense related proteins and the proteins that supports the SAR to ISR shift (NPR1) in presence of S. hyderabadensis under pathogen pressure of R. solani.
The effect of holographic heart models and mixed reality for anatomy learning in congenital heart disease: an exploratory study
Authors: d'Aiello Angelo Fabio , Cabitza Federico , Natali Chiara , Viganò Sophia , Ferrero Paolo , Bognoni Ludovica , Pasqualin Giulia , Giamberti Alessandro , Chessa Massimo 
Published: January 2023

Abstract
In this paper, we present an exploratory study on the potential impact of holographic heart models and mixed reality technology on medical training, and in particular in teaching complex Congenital Heart Diseases (CHD) to medical students. Fifty-nine medical students were randomly allocated into three groups. Each participant in each group received a 30-minute lecture on a CHD condition interpretation and transcatheter treatment with different instructional tools. The participants of the first group attended a lecture in which traditional slides were projected onto a flat screen (group “regular slideware”, RS). The second group was shown slides incorporating videos of holographic anatomical models (group “holographic videos”, HV). Finally, those in the third group wore immersive, head-mounted devices (HMD) to interact directly with holographic anatomical models (group “augmented reality”, AR). At the end of the lecture, the members of each group were asked to fill in a multiple-choice questionnaire aimed at evaluating their topic proficiency, as a proxy to evaluate the effectiveness of the training session (in terms of acquired notions); participants from group AR were also asked to fill in a questionnaire regarding the recommendability and usability of the MS Hololens HMDs, as a proxy of satisfaction regarding its use experience (UX). The findings show promising results for usability and user acceptance.
Altered concentrations of systemic inflammatory biomarkers after electroconvulsive therapy in schizophrenia and their relationship with treatment
Authors: Wang Yu , Wang Guangfa , Gong Muxin , Yang Yujing , Ling Yuru , Fang Xinyu , Zhu Tingting , Wang Zixu , Zhang Xiangrong , Zhang Caiyi 
Published: January 2023

Abstract
Background and hypothesis: Platelet count (PLT), neutrophils, lymphocytes, monocytes and three important ratios calculated from them: NLR, PLR and MLR are inexpensive and accessible biomarkers of systemic inflammation. Electroconvulsive therapy (ECT) is a rapid and effective physical therapy for schizophrenia, but the exploration of its therapeutic mechanisms is still in the early stages. Here we hypothesized the concentrations of systemic inflammatory biomarkers are higher in schizophrenia and decreased after electroconvulsive therapy. Elevated systemic inflammatory biomarkers were associated with less improvement in psychiatric symptoms and cognitive function after ECT.
Study design: This study included 70 patients with schizophrenia (all patients have been treated with antipsychotic medication for a fortnight before ECT) as well as age- and sex-matched 70 healthy controls. We compared the differences of systemic inflammatory biomarkers between schizophrenia and healthy controls, and then determined the changes of systemic inflammatory biomarkers in schizophrenia before and after 6 times of electroconvulsive therapy. Positive and negative symptom scale (PANSS) were used to measure psychiatric symptom of patients with schizophrenia, and Mini-Mental State Examination (MMSE) were used to measure the cognitive function. Spearman correlation analysis was used to assess the relationship between systemic inflammatory biomarkers and clinical symptoms.
Results: At baseline, peripheral blood PLT, neutrophils, monocytes and three important ratios: NLR, PLR and MLR were significantly higher in patients with schizophrenia than in healthy controls (all P<0.05), while lymphocytes did not differ between the two groups. After 6 ECT, neutrophils and NLR significantly decreased, and there was a downward trend in monocytes and MLR. Although PLR and lymphocytes were unchanged after ECT, lymphocytes were significantly higher in remitters than in the non-remitters, and PLR was significantly lower than in the non-remitters. Moreover, the higher the baseline NLR, PLR and MLR, the less improvement in positive symptoms after ECT; and the higher the baseline monocytes, the worse the cognitive function after ECT. Lymphocytes as a protective factor, although unchanged before and after ECT, were negatively associated with total PANSS score, positive symptom score and positively associated with reduction rate of PANSS after ECT.
Conclusions: Our results further emphasize the presence of systemic inflammation in schizophrenia and that electroconvulsive therapy may exert a therapeutic effect in part by attenuating systemic inflammation in schizophrenia. Thus, further studies may lead to new treatment strategies for schizophrenia targeting immune system.
Effects of cycling rehabilitation training on patients with knee osteoarthritis: A systematic review and meta‑analysis
Authors: Bing Fangbo , Wang Yan , Chen Shane Fei , Zhang Guoxin , Zhang Ming 
Published: January 2023

Abstract
Studies have shown that individuals with knee osteoarthritis (KOA) may benefit from cycling exercise. However, the supportive evidence remains unclear. This systematic review aimed to investigate the effects of cycling rehabilitation training (CRT) on the recovery of osteoarthritic knee joints. Five databases were searched with publishing date restrictions from 1 January 2000 to 1 March 2022. We included studies that 1) recruited participants with KOA, 2) used CRT in the intervention, 3) compared measurements before and after the intervention or between a KOA group and a healthy group, and 4) included the measurements of interest. The quality of the studies was assessed using the modified Downs and Black checklist. A random-effects meta-analysis of Western Ontario and McMaster Universities Arthritis index, Lequesne index, and Timed Up and Go test scores was performed. The changes in muscle strength, kinetics, and kinematics as a result of the intervention were summarised. The quality of the 19 included studies was moderate with a median quality score of 19.05. CRT improved muscle strength and physical function (SMD 0.94, 95% CI [0.66, 1.22]), and reduce pain (SMD 0.94, 95% CI [0.66, 1.22]) and joint stiffness (SMD 0.74, 95% CI [0.46, 1.01]) in KOA patients. Compared with healthy subjects, KOA patients showed increased extensor moments and abduction peak adduction angles of their knee joints, and decreased internal rotation moment and peak angles of knee flexion and extension. CRT was effective in relieving knee pain, restoring motor function, and improving lower limb muscle strength. Knee abduction moment may be an indicator of rehabilitation progress.
Nutritional status and support in hospitalized patients with neurological disorders: a cross-sectional survey
Authors: WAN Yali , ZHAN Yuxin , WU Yuanjue , YAO Ping , CHEN Yi , XIONG Zhaoyu , YU Jiaohua , YAN Rong , LI Suyun 
Published: January 2023

Abstract
Background
Proper nutritional management was demonstrated to reduce complications and related to better clinical outcomes. However, inaccurate nutritional screening and assessment, inappropriate nutrition support, and contrary to the suggested guidelines were observed in clinical.
Methods
A self-designed questionnaire was used to conduct a cross-sectional survey in a tertiary-level general hospital. Nutritional Risk Screening 2002 was used for nutrition screening. A total of 620 patients with neurological diseases were enrolled in this study.
Results
All patients were conducted with nutritional screening, and among them, 24.4% had nutritional risk on admission and 22.7% in the final assessment. However, there were no statistically significant differences in nutritional status between the first and final assessments, except for the serum albumin concentration. 118 patients (19.0%) received pharmaceutical nutrition therapy and complications occurred in 35(45.5%) patients treated with EN and 29 (30.5%) patients treated with PN. In our study, not all nursing measures for tube feeding apart from confirming catheter position and raising the head of the bed were carried out in every patient receiving tube feeding in our research.
Conclusions
The incidence of nutritional risk of inpatients with neurological diseases enrolled in this research was relatively lower. However, nutritional treatment in this study was not standardized enough and the medical staff was suggested to accept relevant professional training to perform better in nutrition support.
Patient Perspectives on Consequences of Resectable Colorectal Cancer Treatment: a Qualitative Study
Authors: Kooten Robert T. , Schutte Bianca A.M. , Staalduinen Dorine J. , Hoeksema Jetty H.L. , Holman Fabian A. , Dorp Chantal , Peeters Koen C.M.J. , Tollenaar Rob A.E.M. , Wouters Michel W.J.M. 
Published: January 2023

Abstract
Background: Colorectal cancer is diagnosed in approximately 500,000 patients each year in Europe, leading to a high number of patients having to cope with the consequences of resectable colorectal cancer treatment. As treatment options tend to grow, more information on these treatments’ effects is needed to properly engage in shared decision-making. This study aims to explore the impact of resectable colorectal cancer treatment on patients’ daily life.
Methods: Patients (≥18 years) who underwent an oncological colorectal resection between 2018 and 2021 were selected. Purposeful sampling was used to include patients who differ in age, comorbidity, (neo-)adjuvant therapy, postoperative complications and stoma presence. Semi-structured interviews were conducted, guided by a topic guide. Interviews were fully transcribed and subsequently thematically analyzed using the framework approach. Analyses were done by using the predefined themes: 1) daily life and activities, 2) psychological functioning, 3) social functioning, 4) sexual functioning and 5) healthcare experiences.
Results: Sixteen patients with a follow-up between 0.6 and 4.4 years after surgery were included in this study. Participants reported several challenges they experience due to poor bowel functioning, stoma presence, chemotherapy-induced neuropathy, fear of recurrence and sexual dysfunction, however, they were reported not to interfere much with daily life.
Conclusion: Colorectal cancer treatment leads to several challenges and treatment-related health deficits. This is often not recognized by generic patient-reported outcome measures, but the findings on treatment-related health deficits presented in this study, contain valuable insights which might contribute to improving colorectal cancer care, shared decision making and value based healthcare.
A practical approach to Simulating Heterochronic Sequence Alignments
Authors: Tirado-Ramos Alfredo , Castañón-Puga Manuel , Khatchikian Camilo 
Published: January 2023

Abstract
Objective: The use of tip dates in phylogenetic analysis is becoming ubiquitous due to the increased availability of sequence data isolated at different points in time, i.e., heterochronous datasets. Such datasets permit to co-estimate the absolute time of evolutionary events, expanding the capabilities of phylogenetic analyses withoutthe previous requirement of knowing mutation rates and/or dates of internal nodes in the phylogeny. Currently, there is no ready-to-use script in the literature that is capable of generating simulated heterochronous sequence datasets. The aim of our work is to facilitate the generation of simulated sequences collected at different time points that can be use in simulate-based bioinformatic studies and testing of new phylogenetic methods, therefore facilitating and motivating extensive teaching and hands-on practice of multiple state of the art phylogenetic analytical approaches.
Results: We have written a script for the generation of heterochronous sequence datasets that integrates functions of previously published R and Phyton packages, including the packages TreeSim (R) and pyvolve (Phyton). Our code allows to generate user-defined number of datasets (replicates) with the desired sequences evolving following a designated evolution model among a defined number of topologies with a defined pattern of temporal sampling. The code also enables both simple and complex simulations, by taking advantage of the full range of options available with each package integrated in the code script.
Computational study of the interaction between azo dye (RR141) and Hematite α-Fe2 O3 (111) Surface: A DFT and MDs Study
Authors: Belghiti M. E. , Mizeb K. , Salah M. , Zeroual A. , Mouldar J. , Moubarik A. , Hochlaf M. , idrissi M. El 
Published: January 2023

Abstract
The adsorptive removal of azo dye molecules from textile effluents by the powdered mineral hematite has been largely studied in the literature, but this mechanism of interaction with the mineral hematite surface is still to date not revealed, hence the need for a theoretical study. The crystal structure model of Hematite adopted is α − Fe2O3 (111). The DFT method and MDs(Molecular Dynamics simulations) have been employed to elucidate the mechanism of interaction. The azo-dye molecule chosen for this study is the reactive red RR141. Geometry minimization of RR141 was performed at the DFT / B3LYP / 6 −31+ +g(d,p) level of theory. The reactivity and performance of RR141-vacuum and RR141-aqueous media in isolated state were evaluated on basis of their planarity, global and local electronic properties as well as deformation ability to adhesion to the mineral surface. The Azo (> N− −N <) and hydroxyl (-O--H) groups are the main active centers for the adsorption of RR141 in a vacuum and aqueous media. Azo and hydroxyl groups of RR141 dye are electron donors, while the sulphonic acid (-SO3--Na+) group is an electron acceptor. The RR141 is found more reactive in the vacuum than in an aqueous medium. The interfacial interaction is the combined effect of the hydrogen bond and the interactions between Fe & −O−, C, −S−,= N− atoms. The whole system is interacting on the first layer through (π-π)-bonds in the nearly parallel adsorption geometries and through the single pair electrons of the heteroatoms.