bluuebunny/crossref_metadata_2025_split huggingface dataset:
Identification and validation of novel prognostic biomarkers and therapeutic targets for non-small cell lung cancer
Authors: Lai Li-Ting , Ren Yuan-Hui , Huai Ya-Jun , Liu Yu , Liu Ying , Wang Shan-Shan , Mei Jin-Hong 
Published: March 2023

Background: Despite the significant survival benefits of anti-PD-1/PD-L1 immunotherapy, non-small cell lung cancer (NSCLC) remains one of the most common tumors and major causes of cancer-related deaths worldwide. Thus, there is an urgent need to identify new therapeutic targets for this refractory disease.Methods: In this study, microarray datasets GSE27262, GSE75037, GSE102287, and GSE21933 were integrated by Venn diagram. We performed functional clustering and pathway enrichment analyses using R. Through the STRING database and Cytoscape, we conducted protein-protein interaction (PPI) network analysis and identified the key genes, which were verified by the GEPIA2 and UALCAN portal. Validation of actin-binding protein anillin (ANLN) was performed by quantitative real-time polymerase chain reaction and Western blotting. Additionally, Kaplan-Meier methods were used to compute the survival analyses.Results: In total, 126 differentially expressed genes were identified, which were enriched in mitotic nuclear division, mitotic cell cycle G2/M transition, vasculogenesis, spindle, and peroxisome proliferator-activated receptor signaling pathway. 12 central node genes were identified in the PPI network complex. The survival analysis revealed that high transcriptional levels were associated with inferior survival in NSCLC patients. The clinical implication of ANLN was further explored; its protein expression showed a gradually increasing trend from grade I to III.Conclusion: These Key genes may be involved in the carcinogenesis and progression of NSCLC, which may serve as useful targets for NSCLC diagnosis and treatment.
DNA lipid nanoparticle vaccine targeting outer surface protein C affords protection against homologous Borrelia burgdorferi needle challenge in mice
Authors: Pfeifle Annabelle , Thulasi Raman Sathya N. , Lansdell Casey , Zhang Wanyue , Tamming Levi , Cecillon Jonathon , Laryea Emmanuel , Patel Devina , Wu Jianguo , Gravel Caroline , Frahm Grant , Gao Jun , Chen Wangxue , Chaconas George , Sauve Simon , Rosu-Myles Michael , Wang Lisheng , Johnston Michael J. W. , Li Xuguang 
Published: March 2023

IntroductionThe incidence of Lyme disease (LD) in Canada and the United States has risen over the last decade, nearing 480,000 cases each year. Borrelia burgdorferi sensu lato, the causative agent of LD, is transmitted to humans through the bite of an infected tick, resulting in flu-like symptoms and often a characteristic bull’s-eye rash. In more severe cases, disseminated bacterial infection can cause arthritis, carditis and neurological impairments. Currently, no vaccine is available for the prevention of LD in humans.MethodsIn this study, we developed a lipid nanoparticle (LNP)-encapsulated DNA vaccine encoding outer surface protein C type A (OspC-type A) of B. burgdorferi.ResultsVaccination of C3H/HeN mice with two doses of the candidate vaccine induced significant OspC-type A-specific antibody titres and borreliacidal activity. Analysis of the bacterial burden following needle challenge with B. burgdorferi (OspC-type A) revealed that the candidate vaccine afforded effective protection against homologous infection across a range of susceptible tissues. Notably, vaccinated mice were protected against carditis and lymphadenopathy associated with Lyme borreliosis.DiscussionOverall, the results of this study provide support for the use of a DNA-LNP platform for the development of LD vaccines.
Guarding net effects on landings and discards in Mediterranean trammel net fishery: Case analysis of Egadi Islands Marine Protected Area (Central Mediterranean Sea, Italy)
Authors: Sardo Giacomo , Vecchioni Luca , Milisenda Giacomo , Falsone Fabio , Geraci Michele Luca , Massi Daniela , Rizzo Pietro , Scannella Danilo , Vitale Sergio 
Published: March 2023

Discards remain among the main negative impacts of fishing activities, and their reductions are strengthened by the European Common Fisheries Policy (European Regulation 1380/2013). Trammel net fisheries appear more sustainable compared with other fishing techniques, especially from an ecological viewpoint. Despite this, reports show that trammel net fisheries deliver discard quantities between 10% and 43% of the total catch biomass. To supplement existing information, this current work attempts to address the discard reduction using guarding net in the small-scale fisheries of Egadi Islands MPA (Western Sicily, Central Mediterranean Sea). To assess the reduction of unwanted catches, 48 experimental fishing trials were conducted within a 6-month period. The experimental fishing trial employed a trammel net made up of 20 panels alternated with two different net configurations. The control panels (CN) held a large outer (180 mm) and small inner (31.25 mm) meshes. The test panels (GN) with guarding net constituted a three-mesh-high (50-mm mesh size) net placed between trammel net panels and a lead line. A total of 3,310 individuals belonging to 106 taxa and nine phyla were caught. Crustaceans were the most abundant unwanted catches in the control panels, whereas bioconstructions occurred in the guarding net panels. The discard ratios of CN and GN panels were statistically different (t-value = –2.55; p&lt; 0.05). The analysis of catch per unit effort showed higher catches of CN panels for both commercial and discard fractions (p&lt; 0.05). Moreover, the guarding net panels caught the main discarded species at 20% lower compared with the control. The overall value of the catch at the CN panels (€ 3,366.90) was higher than the total income (€ 2,043.70) generated using the GN panels, which suggests a significant commercial loss of 40% (p&lt; 0.05).
Effects of anthropogenic sounds on the behavior and physiology of the Eastern oyster (Crassostrea virginica)
Authors: Ledoux Tamara , Clements Jeff C. , Comeau Luc A. , Cervello Gauthier , Tremblay Réjean , Olivier Frédéric , Chauvaud Laurent , Bernier Renée Y. , Lamarre Simon G. 
Published: March 2023

IntroductionNoise pollution is a major stressor in the marine environment; however, responses of economically and ecologically important invertebrates, such as oysters, are largely unknown.MethodsUnder laboratory conditions, we measured acute behavioral and physiological responses of eastern oysters (Crassostrea virginica) to sound treatments mimicking human activity in the environment.ResultsOysters immediately reduced their valve gape under simulated pile driving sound, but not drilling or boating sound. Pile-driving sound also reduced adductor muscle glycogen, but not triglyceride. None of the sound treatments affected longer-term (12 hours) valve activity levels after the administration of sounds. Interestingly, neither acute nor longer-term valve gaping responses were correlated with glycogen content on the individual level, suggesting that the observed behavioral responses to sound were not mechanistically driven by energetic physiology.DiscussionOur results suggest that C. virginica responds to some, but not all, anthropogenic sounds. Future studies assessing downstream effects on growth, reproduction, and survival in the wild are needed to better understand the effects of anthropogenic sounds on oyster populations and the biological communities they support.
Design and testing of a mechanized brush-screen cooperative vibration harvester for mudflat-buried shellfish based on the discrete element method
Authors: Li Hangqi , Mu Gang , Zhang Hanbing , Wu Hao , Liu Fawei , Sun Zhenyin , Zhang Qian , Wang Yizhou , Wang Yurui , Li Xiuchen , Zhang Guochen 
Published: March 2023

IntroductionTo enhance the application of mechanized harvesting and supplement research on harvesting theory in mudflat-buried shellfish harvesting in China, a brush-screen cooperative mudflat-buried shellfish vibration harvester was designed.MethodsThe harvester is primarily composed of a crank rocker double-layer vibrating screen, two stage rolling brush, and a conveyor chain. White clams (Mactra veneriformis) cultured in mudflats were used as the research objects in this paper, and the mechanics and motion states of the shellfish on the vibrating screen were analyzed. The shellfish harvesting simulation response surface experiments based on the discrete element method (DEM) were conducted to analyze the influence of the main operating parameters on the quantity of shellfish harvested.ResultsThe results revealed that the number of shellfish harvested was significantly influenced (p&lt; 0.01) by vibrating screen amplitude, first-stage spiral rolling stainless steel brush rotation rate, and harvester travel speed. The optimal combination of key parameters was 1.4 mm, 40 rpm, and 10 m/min, respectively. With these values, the projected shellfish crushing rate was 2.82% and the shellfish harvesting efficiency was 125 pieces/m2. The equipment was then manufactured and the shellfish harvesting verification test was performed under the same operating parameters as the simulation. Test results indicated that the harvesting efficiency of the equipment was 114 pieces/m2 and the shellfish crushing rate was 6.97%.DiscussionThe shellfish harvesting work could be completed by the equipment effectively and with low loss. The results of this study provide a theoretical reference for a novel mechanized method of harvesting mudflat-buried shellfish.
Influence of tillage and residue management practices on productivity, sustainability, and soil biological properties of rice-barley cropping systems in indo-gangetic plain of India
Authors: Chandra Priyanka , Khippal Anil Kumar , Prajapat Kailash , Barman Arijit , Singh Geeta , Rai Arvind Kumar , Ahlawat Om Parkash , Verma R. P. S. , Kumari Kamini , Singh Gyanendra 
Published: March 2023

IntroductionConservation agriculture is a sustainable system of farming that safeguard and conserves natural resources besides enhancing crop production. The biological properties of soil are the most sensitive indicator to assess the short term impact of management practices such as tillage and residue incorporation.MethodsNine treatments of tillage and residue management practices [Reduced till direct seeded rice-zero till barley (RTDSR–ZTB); RTDSR–ZTB–green gram residue (Gg); Zero till direct seeded rice–zero till barley–zero till green gram (ZTDSR–ZTB–ZTGg); RTDSR–ZTB + rice residue at 4 t ha 1 (RTDSR–ZTBRR4); RTDSR–ZTBRR6; un-puddled transplanted rice (UPTR)–ZTB–Gg; UPTR–ZTBRR4; UPTR–ZTBRR6, and puddled transplanted rice (PTR)–RTB] executed under fixed plot for five years on crop productivity and soil biological properties under rice-barley production system.ResultsThe shifting in either RTDSR or ZTDSR resulted in yield penalty in rice compared to PTR. The PTR recorded highest pooled grain yield of 3.61 ha−1. The rice grain yield reduced about 10.6% under DSR as compared to PTR. The ZTB along with residue treatments exhibited significantly higher grain yield over ZTB, and the RTDSR-ZTBRR6 registered highest pooled grain yield of barley. The system productivity (12.45 t ha−1) and sustainable yield index (0.87) were highest under UPTR-ZTBRR6. Biological parameters including microbial biomass carbon, soil respiration, microbial enzymes (Alkaline phosphatase, nitrate reductase and peroxidase), fluorescein diacetate hydrolysis, ergosterol, glomalin related soil proteins, microbial population (bacteria, fungi and actinobacteria) were found to be significantly (p &lt; 0.05) effected by different nutrient management practices. Based on the PCA analysis, Fluorescein diacetate hydrolysis, microbial biomass carbon, soil respiration, nitrate reductase and fungi population were the important soil biological parameters indicating soil quality and productivity in present experiment. The results concluded that UPTR-ZTBRR6 was a more suitable practice for maintaining system productivity and soil biological health.DiscussionThe understanding of the impact of different tillage and residue management practices on productivity, soil biological properties and soil quality index under rice-barley cropping system will help in determining the combination of best conservation agriculture practices for improved soil quality and sustainable production.
Association between diabetes mellitus, prediabetes and risk, disease progression of Parkinson's disease: A systematic review and meta-analysis
Authors: Zhong Qifan , Wang Shenglong 
Published: March 2023

BackgroundPrevious studies reported inconsistent results regarding association between diabetes mellitus (DM), prediabetes and risk, disease progression of Parkinson's disease (PD). The meta-analysis was made to investigate association between DM, prediabetes and risk, disease progression of PD.MethodsLiteratures investigating association between DM, prediabetes and risk, disease progression of PD were searched in these databases: PubMed and Web of Science. Included literatures were published before October 2022. STATA 12.0 software was used to compute odds ratios (ORs)/relative risks (RRs) or standard mean differences (SMDs).ResultsDM was associated with a higher risk of PD, compared to non-diabetic participants with a random effects model (OR/RR = 1.23, 95% CI 1.12–1.35, I2 = 90.4%, p &lt; 0.001). PD with DM (PD-DM) was associated with a faster motor progression compared to PD without DM (PD-noDM) with a fixed effects model (RR = 1.85, 95% CI 1.47–2.34, I2 = 47.3%, p = 0.091). However, meta-analysis for comparison in change rate of United Rating Scale (UPDRS) III scores from baseline to follow-up time between PD-DM and PD-noDM reported no difference in motor progression between PD-DM and PD-noDM with a random effects model (SMD = 2.58, 95% CI = −3.11 to 8.27, I2 = 99.9%, p &lt; 0.001). PD-DM was associated with a faster cognitive decline compared to PD-noDM with a fixed effects model (OR/RR = 1.92, 95% CI 1.45–2.55, I2 = 50.3%, p = 0.110).ConclusionsIn conclusion, DM was associated with a higher risk and faster disease decline of PD. More large-scale cohort studies should be adopted to evaluate the association between DM, prediabetes and PD.
MRI-based radiomics models for the early prediction of radiation-induced temporal lobe injury in nasopharyngeal carcinoma
Authors: Huang Lixuan , Yang Zongxiang , Zeng Zisan , Ren Hao , Jiang Muliang , Hu Yao , Xu Yifan , Zhang Huiting , Ma Kun , Long Liling 
Published: March 2023

ObjectiveThis study was conducted to develop and validate a radiomics-clinics combined model-based magnetic resonance imaging (MRI) radiomics and clinical features for the early prediction of radiation-induced temporal lobe injury (RTLI) in patients with nasopharyngeal carcinoma (NPC).MethodsThis retrospective study was conducted using data from 130 patients with NPC (80 patients with and 50 patients without RTLI) who received radiotherapy. Cases were assigned randomly to training (n = 91) and testing (n = 39) datasets. Data on 168 medial temporal lobe texture features were extracted from T1WI, T2WI, and T1WI-CE MRI sequences obtained at the end of radiotherapy courses. Clinics, radiomics, and radiomics–clinics combined models (based on selected radiomics signatures and clinical factors) were constructed using machine learning software. Univariate logistic regression analysis was performed to identify independent clinical factors. The area under the ROC curve (AUC) was performed to evaluate the performance of three models. A nomogram, decision curves, and calibration curves were used to assess the performance of the combined model.ResultsSix texture features and three independent clinical factors associated significantly with RTLI were used to build the combined model. The AUCs for the combined and radiomics models were 0.962 [95% confidence interval (CI), 0.9306–0.9939] and 0.904 (95% CI, 0.8431–0.9651), respectively, for the training cohort and 0.947 (95% CI, 0.8841–1.0000) and 0.891 (95% CI, 0.7903–0.9930), respectively, for the testing cohort. All of these values exceeded those for the clinics model (AUC = 0.809 and 0.713 for the training and testing cohorts, respectively). Decision curve analysis showed that the combined model had a good corrective effect.ConclusionThe radiomics–clinics combined model developed in this study showed good performance for predicting RTLI in patients with NPC.
Altered neuromagnetic activity in default mode network in childhood absence epilepsy
Authors: Wang Yingfan , Li Yihan , Sun Fangling , Xu Yue , Xu Fengyuan , Wang Siyi , Wang Xiaoshan 
Published: March 2023

PurposeThe electrophysiological characterization of resting state oscillatory functional connectivity within the default mode network (DMN) during interictal periods in childhood absence epilepsy (CAE) remains unclear. Using magnetoencephalographic (MEG) recordings, this study investigated how the connectivity within the DMN was altered in CAE.MethodsUsing a cross-sectional design, we analyzed MEG data from 33 children newly diagnosed with CAE and 26 controls matched for age and sex. The spectral power and functional connectivity of the DMN were estimated using minimum norm estimation combined with the Welch technique and corrected amplitude envelope correlation.ResultsDefault mode network showed stronger activation in the delta band during the ictal period, however, the relative spectral power in other bands was significantly lower than that in the interictal period (pcorrected &lt; 0.05 for DMN regions, except bilateral medial frontal cortex, left medial temporal lobe, left posterior cingulate cortex in the theta band, and the bilateral precuneus in the alpha band). It should be noted that the significant power peak in the alpha band was lost compared with the interictal data. Compared with controls, the interictal relative spectral power of DMN regions (except bilateral precuneus) in CAE patients was significantly increased in the delta band (pcorrected &lt; 0.01), whereas the values of all DMN regions in the beta-gamma 2 band were significantly decreased (pcorrected &lt; 0.01). In the higher frequency band (alpha-gamma1), especially in the beta and gamma1 band, the ictal node strength of DMN regions except the left precuneus was significantly higher than that in the interictal periods (pcorrected &lt; 0.01), and the node strength of the right inferior parietal lobe increased most significantly in the beta band (Ictal: 3.8712 vs. Interictal: 0.7503, pcorrected &lt; 0.01). Compared with the controls, the interictal node strength of DMN increased in all frequency bands, especially the right medial frontal cortex in the beta band (Controls: 0.1510 vs. Interictal: 3.527, pcorrected &lt; 0.01). Comparing relative node strength between groups, the right precuneus in CAE children decreased significantly (β: Controls: 0.1009 vs. Interictal: 0.0475; γ 1: Controls:0.1149 vs. Interictal:0.0587, pcorrected &lt; 0.01) such that it was no longer the central hub.ConclusionThese findings indicated DMN abnormalities in CAE patients, even in interictal periods without interictal epileptic discharges. Abnormal functional connectivity in CAE may reflect abnormal anatomo-functional architectural integration in DMN, as a result of cognitive mental impairment and unconsciousness during absence seizure. Future studies are needed to examine if the altered functional connectivity can be used as a biomarker for treatment responses, cognitive dysfunction, and prognosis in CAE patients.
An improved BECT spike detection method with functional brain network features based on PLV
Authors: Jiang Lurong , Fan Qikai , Ren Juntao , Dong Fang , Jiang Tiejia , Liu Junbiao 
Published: March 2023

BackgroundChildren with benign childhood epilepsy with centro-temporal spikes (BECT) have spikes, sharps, and composite waves on their electroencephalogram (EEG). It is necessary to detect spikes to diagnose BECT clinically. The template matching method can identify spikes effectively. However, due to the individual specificity, finding representative templates to detect spikes in actual applications is often challenging.PurposeThis paper proposes a spike detection method using functional brain networks based on phase locking value (FBN-PLV) and deep learning.MethodsTo obtain high detection effect, this method uses a specific template matching method and the ‘peak-to-peak' phenomenon of montages to obtain a set of candidate spikes. With the set of candidate spikes, functional brain networks (FBN) are constructed based on phase locking value (PLV) to extract the features of the network structure during spike discharge with phase synchronization. Finally, the time domain features of the candidate spikes and the structural features of the FBN-PLV are input into the artificial neural network (ANN) to identify the spikes.ResultsBased on FBN-PLV and ANN, the EEG data sets of four BECT cases from the Children's Hospital, Zhejiang University School of Medicine are tested with the AC of 97.6%, SE of 98.3%, and SP 96.8%.
Postoperative parenteral glutamine supplementation improves the short-term outcomes in patients undergoing colorectal cancer surgery: A propensity score matching study
Authors: Tang Gang , Pi Feng , Qiu Yu-Hao , Wei Zheng-Qiang 
Published: March 2023

IntroductionThe clinical utility of glutamine in patients undergoing colorectal cancer (CRC) surgery remains unclear. Therefore, we aimed to investigate the impact of postoperative treatment with glutamine on postoperative outcomes in patients undergoing CRC surgery.MethodsWe included patients with CRC undergoing elective surgery between January 2014 and January 2021. Patients were divided into the glutamine and control groups. We retrospectively analyzed postoperative infections complications within 30 days and other outcomes using propensity score matching and performed between-group comparisons.ResultsWe included 1,004 patients who underwent CRC surgeries; among them, 660 received parenteral glutamine supplementation. After matching, there were 342 patients in each group. The overall incidence of postoperative complications was 14.9 and 36.8% in the glutamine and control groups, respectively, indicating that glutamine significantly reduced the incidence of postoperative complications [p &lt; 0.001; risk ratio (RR) 0.41 [95% CI 0.30–0.54]]. Compared with the control group, the glutamine group had a significantly lower postoperative infection complications rate (10.5 vs. 28.9%; p &lt; 0.001; RR 0.36 [95% CI 0.26–0.52]). Although there was no significant between-group difference in the time to first fluid diet (p = 0.052), the time to first defecation (p &lt; 0.001), first exhaust (p &lt; 0.001), and first solid diet (p &lt; 0.001), as well as hospital stay (p &lt; 0.001) were significantly shorter in the glutamine group than in the control group. Furthermore, glutamine supplementation significantly reduced the incidence of postoperative intestinal obstruction (p = 0.046). Moreover, glutamine supplementation alleviated the decrease in albumin (p &lt; 0.001), total protein (p &lt; 0.001), and prealbumin levels (p &lt; 0.001).ConclusionsTaken together, postoperative parenteral glutamine supplementation can effectively reduce the incidence of postoperative complications, promote the recovery of intestinal function, and improve albumin levels in patients undergoing CRC surgery.