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Screening biomarkers for spinal cord injury using weighted gene co-expression network analysis and machine learning

Neural Regeneration Research 2024年第12期19卷 2723-2734页

作者： Xiaolu Li ye yang Senming Xu Yuchang Gui Jianmin Chen Jianwen Xu Department of Rehabilitation Medicine The First Affiliated Hospital of Guangxi Medical UniversityNanningGuangxi Zhuang Autonomous RegionChina Department of Rehabilitation Medicine Guilin People’s HospitalGuilinGuangxi Zhuang Autonomous RegionChina Department of Rehabilitation Medicine The First Affiliated Hospital of Fujian Medical UniversityFuzhouFujian ProvinceChina

Immune changes and inflammatory responses have been identified as central events in the pathological process of spinal co rd injury.They can greatly affect nerve regeneration and functional recovery.However,there is still limited understanding of the peripheral immune inflammato ry response in spinal cord inju ry.In this study.we obtained microRNA expression profiles from the peripheral blood of patients with spinal co rd injury using high-throughput sequencing.We also obtained the mRNA expression profile of spinal cord injury patients from the Gene Expression Omnibus(GEO)database(GSE151371).We identified 54 differentially expressed microRNAs and 1656 diffe rentially expressed genes using bioinformatics approaches.Functional enrichment analysis revealed that various common immune and inflammation-related signaling pathways,such as neutrophil extracellular trap formation pathway,T cell receptor signaling pathway,and nuclear factor-κB signal pathway,we re abnormally activated or inhibited in spinal cord inju ry patient samples.We applied an integrated strategy that combines weighted gene co-expression network analysis,LASSO logistic regression,and SVM-RFE algorithm and identified three biomarke rs associated with spinal cord injury:ANO10,BST1,and ZFP36L2.We verified the expression levels and diagnostic perfo rmance of these three genes in the original training dataset and clinical samples through the receiver operating characteristic curve.Quantitative polymerase chain reaction results showed that ANO20 and BST1 mRNA levels were increased and ZFP36L2 mRNA was decreased in the peripheral blood of spinal cord injury patients.We also constructed a small RNA-mRNA interaction network using Cytoscape.Additionally,we evaluated the proportion of 22 types of immune cells in the peripheral blood of spinal co rd injury patients using the CIBERSORT tool.The proportions of naive B cells,plasma cells,monocytes,and neutrophils were increased while the proportions of memory B cells,CD8^(+)T cells,resting natural killer cells,resti

关键词： bioinformatics analysis biomarker CIBERSORT GEO dataset LASSO miRNA-mRNA network RNA sequencing spinal cord injury SVM-RFE weighted gene co-expression network analysis

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Expression and significance of pigment epithelium-derived factor and vascular endothelial growth factor in colorectal adenoma and cancer

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World Journal of Gastrointestinal Oncology 2024年第3期16卷 670-686页

作者： ye yang Wu Wen Feng-Lin Chen Ying-Jie Zhang Xiao-Cong Liu Xiao-Yan yang Shan-Shan Hu ye Jiang Jing Yuan Digestive Diseases Chengdu Qingbaijiang District People's HospitalChengdu 610300Sichuan ProvinceChina Digestive Diseases Chengdu Second People’s HospitalChengdu 610000Sichuan ProvinceChina Graduate School Chengdu Medical CollegeChengdu 610000Sichuan ProvinceChina

BACKGROUND The incidence and mortality of colorectal cancer(CRC)are among the highest in the world,and its occurrence and development are closely related to tumor neovascularization.When the balance between pigment epithelium-derived factors(PEDF)that inhibit angiogenesis and vascular endothelial growth factors(VEGF)that stimulate angiogenesis is broken,angiogenesis is out of control,resulting in tumor development.Therefore,it is very necessary to find more therapeutic targets for CRC for early intervention and later treatment.AIM To investigate the expression and significance of PEDF,VEGF,and CD31-stained microvessel density values(CD31-MVD)in normal colorectal mucosa,adenoma,and CRC.METHODS In this case-control study,we collected archived wax blocks of specimens from the Digestive Endoscopy Center and the General Surgery Department of Chengdu Second People's Hospital from April 2022 to October 2022.Fifty cases of specimen wax blocks were selected as normal intestinal mucosa confirmed by electronic colonoscopy and concurrent biopsy(normal control group),50 cases of specimen wax blocks were selected as colorectal adenoma confirmed by electronic colonoscopy and pathological biopsy(adenoma group),and 50 cases of specimen wax blocks were selected as CRC confirmed by postoperative pathological biopsy after inpatient operation of general surgery(CRC group).An immunohistochemical staining experiment was carried out to detect PEDF and VEGF expression in three groups of specimens,analyze their differences,study the relationship between the two and clinicopathological factors in CRC group,record CD31-MVD in the three groups,and analyze the correlation of PEDF,VEGF,and CD31-MVD in the colorectal adenoma group and the CRC group.The F test or adjusted F test is used to analyze measurement data statistically.Kruskal-Wallis rank sum test was used between groups for ranked data.The chi-square test,adjusted chi-square test,or Fisher's exact test were used to compare the rates between groups.All differences between groups were co

关键词： Pigment epithelium-derived factors Vascular endothelial growth factor Microvessel density Colorectal adenoma Colorectal cancer Targeted therapy

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Clarification of the dispersion mechanism of cathode slurry of lithium-ion battery under effects of both poly vinylidene fluoride/carbon black ratio and mixing time

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Particuology 2024年第5期88卷 116-127页

作者： Zhilong Wang Zhenzhen Zhao ye yang An Zhang Xiayi Liu Tong Zhao Yahui Cui School of Mechanical and Precision Instrument Engineering Xi'an University of TechnologyXi'an 710048China

This paper presents the effects of both poly vinylidene fluoride(PVDF)/carbon black(CB)ratio(m PVDF:m CB)and mixing time t on the dispersion mechanism of the cathode slurry of lithium-ion battery(LIB).The dispersion mechanism is deduced from the electrochemical,morphological and rheological properties of the cathode slurry by using electrical impedance spectroscopy(EIS),scanning electron microscopy and rheology methods,respectively.From the perspective of EIS method,static simulation models are established in the COMSOL Multiphysics software;meanwhile,the simulated results are used to verify the correctness of the electrochemical properties of the cathode slurry.As a result,the following conclusions are able to be obtained.Firstly,in the case of the mass ratio m PVDF:m CB=5:10,LiCoO2 particles are completely coated by the mixture of CB and PVDF to form a stable polymer gel structure.Higher or lower m PVDF:m CB leads to the larger impedance and worse dispersion status for the cathode slurry.Secondly,when t=6 min,a good gel-like conductive network structure is formed by coating the thinner evenly dispersed CB–PVDF double layer around LiCoO2 particles.Finally,a strategy regarding to both m PVDF:m CB and t in experimental scale is proposed,which has the capability of improving the performance of LIB.

关键词： Cathode slurry Dispersion mechanism Lithium-ion battery(LIB)

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Clinical prediction of insufficient vaults after implantable collamer lens implantation

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International Journal of Ophthalmology(English edition) 2024年第7期17卷 1300-1306页

作者： Jun Zhu Dan Cheng Xue-Ying Zhu Fen-Fen Li ye yang Yu-Feng ye National Clinical Research Center for Ocular Diseases Eye HospitalWenzhou Medical UniversityWenzhou 325027Zhejiang ProvinceChina

AIM:To determine the factors related to preoperative ocular characters that are predictive of insufficient vault(<250μm)after implantable collamer lens(ICL V4c;STAAR Surgical)implantation.METHODS:The participants und... 详细信息

AIM:To determine the factors related to preoperative ocular characters that are predictive of insufficient vault(yes)and 36 patients(63 eyes)were in the low and normal vault groups,respectively.All implantation procedures were uneventful with no cataract formation in the early postoperative period.The sulcusto-sulcus lens rise(STSL)and iris ciliary angle(ICA)were correlated with vault at 3mo after surgery.Every 0.1 mm increase in STSL was associated with 38.9μm decrease in the postoperative 3-month vault.A rise of 1 degree in ICA is associated with a reduction of 4μm in vault.CONCLUSION:Eyes with a narrow ciliary sulcus are associated with a higher rate of low vault after ICL implantation,suggesting a need for adjustments to the ICL size in these patients.Evaluating the characteristics of the ciliary sulcus contributes valuable information to predict low vault after surgery.

关键词： insufficient vault implantable collamer lens ciliary body posterior chamber

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Understanding the educational inequalities in suicide attempts and their mediators:a Mendelian randomisation study

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General Psychiatry 2024年第1期37卷 133-142页

作者： Jiahao Zhu Houpu Liu Rui Gao Lilu Ding Jing Wang ye yang Dan Zhou Yingjun Li Department of Epidemiology|and Health Statistics School of Public HealthHangzhou Medical CollegeHangzhouZhejiangChina Vanderbit Genetics Institute Vanderbilt University Medical CenterNashvilleTennesseeUSA School of Public Health and the Second Afliated Hospital Zhejiang University Schol of MedicineHangzhouZhejiangChina

Background Educational inequalities in suicide have become increasingly prominent over the past decade.Elucidating modifiable risk factors that serve as intermediaries in the impact of low educational attainment on suicide has the potential to reduce health disparities.Aims To examine the risk factors that mediate the relationship between educational attainment and suicide attempts and quantify their contributions to the mediation effect.Methods We conducted a two-sample Mendelian randomisation(MR)analysis to estimate the causal effect of educational attainment on suicide attempts,utilising genome-wide association study summary statistics from the Integrative Psychiatric Research(iPSYCH;6024 cases and 44240 controls)and FinnGen(8978 cases and 368299 controls).We systematically evaluated 42 putative mediators within the causal pathway connecting reduced educational attainment to suicide attempts and employed two-step and multivariable MR to quantify the proportion of the mediated effect.Results In the combined analysis of iPSYCH and FinnGen,each standard deviation(SD)decrease in genetically predicted educational attainment(equating to 3.4 years of education)was associated with a 105%higher risk of suicide attempts(odds ratio(OR):2.05;95%confidence interval(Cl):1.81 to 2.31).0f the 42 risk factors analysed,the two-step MR identified five factors that mediated the association between educational attainment and suicide attempts.The respective proportions of mediation were 47%(95%Cl:29%to 66%)for smoking behaviour,36%(95%Cl:0%to 84%)for chronic pain,49%(95%Cl:36%to 61%)for depression,35%(95%Cl:12%to 59%)for anxiety and 26%(95%Cl:18%to 34%)for insomnia.Multivariable MR implicated these five mediators collectively,accounting for 68%(95%Cl:40%to 96%)of the total effect.Conclusions This study identified smoking,chronic pain and mental disorders as primary intervention targets for attenuating suicide risk attributable to lower educational levels in the European population.

关键词： effect. random inequalities

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Late Cenozoic uplift of the Liupan Mountains:Evidence from the Neogene loess deposits

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Science China Earth Sciences 2024年第5期67卷 1480-1488页

作者： Zhilin HE Yansong QIAO Zhengtang GUO Chaoqin CHEN Long CHEN yang FU ye yang Yanxia LIANG Xinru LIN Guoqiao XIAO Tao ZHAN Key Laboratory of Cenozoic Geology and Environment Institute of Geology and GeophysicsChinese Academy of SciencesBeijing 100029China Institute of Geomechanics Chinese Academy of Geological SciencesBeijing 100081China CAS Center for Excellence in Life and Paleoenvironment Beijing 100044China University of Chinese Academy of Sciences Beijing 100049China Institute of Ecological Geology Survey and Research of Heilongjiang Province Harbin 150030China School of Geography and Information Engineering China University of GeosciencesWuhan 430078China School of Earth Sciences China University of GeosciencesWuhan 430074China Natural Resources Survey Institute of Heilongjiang Province Harbin 150036China

The Liupan Mountains,one of the important mountain ranges in western China,are located on the boundary between the northeastern Tibetan Plateau and the Ordos Block.The uplift history of the Liupan Mountains remains controversial.Loess deposits are good tracers of regional tectonic and geomorphic changes,because loess is sensitive to erosion and the formation and preservation of loess requires relatively flat highlands and relatively stable tectonic environments.We investigated the distribution of Neogene loess deposits on the western piedmont of the Liupan Mountains and examined a near-continuous loess section(Nanping section)on the piedmont alluvial highlands.Correlation of magnetic susceptibility stratigraphy with the QA-ⅠMiocene loess sequence dates this 56-m section covering the interval from~8.1 to 6.2 Ma.The lower boundary age of this section,together with previously reported Zhuanglang red clay(sand-gravel layers with intercalated loess during~9–8 Ma and near-continuous loess during~8–4.8 Ma)and Chaona red clay(~8.1–2.58 Ma),indicates that the Liupan Mountains were uplifted in the late Miocene(~9–8 Ma)and basically formed by~8 Ma,attesting to no intense mountain building since that time.In addition,based on the information from the Zhuanglang core and the QA-Ⅰsection,we infer that sizable parts of the Liupan Mountains were uplifted during the late Oligocene–early Miocene and did not experience intense uplift during~22–9 Ma.

关键词： Liupan Mountains Mountain building Neogene Loess Chinese Loess Plateau Late Miocene Late Oligocene–early Miocene

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Sum rate optimizing for multi-IRS-assisted UAV downlink transmission system using deep reinforcement learning

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The Journal of China Universities of Posts and Telecommunications 2024年

作者： Long Yuan He Xiaoli ye yang Zhang Bo School of Computer Science and Engineering Sichuan University of Science and Engineering School of Resources Sichuan Agricultural University

By leveraging the high maneuverability of the unmanned aerial vehicle (UAV) and the expansive coverage of the intelligent reflecting surface (IRS)， a multi-IRS-assisted UAV communication system aimed at maximizing the sum data rate of all users is investigated in this paper. This is achieved through the joint optimization of the trajectory and transmit beamforming of the UAV， as well as the passive phase shift of the IRS. Nevertheless， the initial problem exhibits a high degree of non-convexity， posing challenges for conventional mathematical optimization techniques in delivering solutions that are both quick and efficient while maintaining low complexity. To address this issue， a novel scheme called the deep reinforcement learning (DRL)-based enhanced cooperative reflection network (DCRN) is proposed. This scheme effectively identifies optimal strategies， with the long short-term memory (LSTM) network improving algorithm convergence by extracting hidden state information. Simulation results demonstrate that the proposed scheme outperforms the baseline scheme， manifesting substantial enhancements in sum rate and superior performance.

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Mucosa color and size may indicate malignant transformation of chicken skin mucosa-positive colorectal neoplastic polyps

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World Journal of Gastrointestinal Oncology 2024年第3期16卷 750-760页

作者： Ying-Jie Zhang Meng-Xia Yuan Wu Wen Fan Li Yi Jian Chuan-Ming Zhang ye yang Feng-Lin Chen Department of Digestive Diseases Chengdu Second People’s HospitalChengdu 610000Sichuan ProvinceChina Graduate School Chengdu Medical CollegeChengdu 610000Sichuan ProvinceChina

BACKGROUND Lipid metabolism reprogramming is suspected to exist in pre-cancerous lesions,including colorectal adenoma.Screening colonoscopy frequently reveals chicken skin mucosa(CSM;white or yellow-white speckled mucosa)surrounding colo-rectal polyps,caused by macrophages engulfing and accumulating the lipids decomposed by colon cells or adjacent tumors.CSM-positive colorectal polyps are associated with various diseases;however,their prognosis varies greatly.Cold snare polypectomy is commonly used to resect lesions up to 10 to 15 mm in diameter without signs of submucosal invasion but is controversial for CSM-positive colorectal polyps.Improved imaging is required to diagnose and treat CSM-positive colorectal polyps.METHODS This retrospective cohort study included 177 patients with CSM-positive colorectal polyps diagnosed using endoscopy.All patient-related information was extracted from the Goldisc soft-clinic DICOM system or electronic medical record system.Based on the pathological results,patients were classified as non-neoplastic polyps(five juvenile polyps),neoplastic polyps,non-invasive high-grade neoplasia(NHGN),or submucosal invasive carcinoma(SM stage cancer).We analyzed and compared the clinical features,suspected risk factors for malignant transformation of neoplastic polyps,and early infiltration of sub-mucosal carcinoma.RESULTS The diameters of NHGN and SM polyps were much smaller than those of neoplastic polyps.Most NHGN polyps had a deeper red mucosal color.On logistic regression analyses,diameter and deeper red mucosal color were independent risk factors for malignant transformation of neoplastic polyps.Type 1 CSM was more common in high-grade intraepithelial neoplasia and SM;type 2 CSM was more common in neoplastic polyps.Logistic regression analyses revealed no significant differences in the malignant transformation of neoplastic polyps or early submucosal invasion of CSM-positive colorectal cancer.Changes in the CSM mucosa surrounding neoplastic polyps and submucosal invasion of colorectal ca

关键词： Chicken skin mucosa Colorectal cancer Colorectal polyps Endoscopic resection Malignant transformation White light endoscopy

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Anti-inflammatory germacrane-type sesquiterpene lactones from Vernonia sylvatica

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Chinese Journal of Natural Medicines 2024年第6期22卷 568-576页

作者： WANG Min LI Han HU Bintao TANG Chunping XU Hui KE Changqiang XIE Zuoquan ye yang YAO Sheng State Key Laboratory of Drug Research&Natural Products Research Center Shanghai Institute of Materia MedicaChinese Academy of SciencesShanghai 201203China University of Chinese Academy of Sciences Beijing 100049China School of Life Science and Technology Shanghai Tech UniversityShanghai 201210China State Key Laboratory of Drug Research Shanghai Institute of Materia MedicaChinese Academy of SciencesShanghai 201203China Zhongshan Institute for Drug Discovery Shanghai Institute of Materia MedicaChinese Academy of SciencesZhongshan 528400China

Nine new germacranolides,sylvaticalides A−H(1-9),and three known analogues(10-12)were isolated from the aeri-al part of Vernonia sylvatica.Their structures were established using comprehensive spectroscopic analysis,including high-resolution electrospray ionization mass spectroscopy(HR-ESI-MS)and 1D and 2D nuclear magnetic resonance(NMR)spectra.Their absolute configurations were determined by X-ray diffraction experiments.The anti-inflammatory activities of all isolated compounds were as-sessed by evaluating their inhibitory effects on the nuclear factor kappa B(NF-κB)pathway,which was activated by lipopolysacchar-ide(LPS)-stimulated human THP1-Dual cells,and the interferon-stimulated gene(ISG)pathway,activated by STING agonist MSA-2 in the same cell model.Compounds 1,2 and 6 showed inhibitory effects on the NF-κB and ISG signaling pathways,with IC_(50)values ranging from 4.12 to 10.57μmol·L^(−1).

关键词： Vernonia sylvatica Germacrane-type sesquiterpene lactone Sylvaticalides A−H Anti-inflammatory NF-κB path-way ISG pathway

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Highly efficient catalyzed by imidazolium-based dual-sulfonic acid functionalized ionic liquids for liquid phase Beckmann rearrangement:experiments and COSMO-RS calculations

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Green Chemical Engineering 2024年第1期5卷 108-118页

作者： Xin Guo Zhiyuan Wang ye yang Jiahui Zhang Yanduo Liu Zhiyuan Mu Siqi Jiang Chunxiao Ren Dan Lv Yufeng Hu Zhichang Liu State Key Laboratory of Heavy Oil Processing and High Pressure Fluid Phase Behavior&Property Research Laboratory China University of PetroleumBeijing102249China School of Chemistry and Materials Science University of Science and Technology of ChinaHefei230026China School of Light Industry and Engineering South China University of TechnologyGuangzhou510641China

A production technique with the high yield and environmentally friendly process need be developed forε-Caprolactam(CPL)in the chemical industry.This technology is highly desired to design and synthesize high--performance catalysts for liquid phase Beckmann rearrangement of cyclohexanone oxime(CHO)to CPL.In this work,3-methyl-1-(propyl-4-sulfonyl)imidazolium methanesulfonate([PHSO_(3)MIM][MSA])with highly efficient and excellent yield is synthesized successfully.When the optimum molar ratio of ZnCl_(2)over[PHSO_(3)MIM][MSA]was 0.02,it exhibits the high selectivity(94%)of CPL at 90℃for 1 h.Interestingly,Fourier-transform infrared(FT-IR)investigations show that the functional Br∅nsted-Lewis acidic types of ionic liquids(ILs)are formed by the uniformly distributed ZnCl_(2)and[PHSO_(3)MIM][MSA].In addition,the hydrogen bond(H-bond)is formed between CHO and ILs.After ten reaction cycles,no significant structure changes are observed in the recovered[PHSO_(3)MIM][MSA]-ZnCl_(2).The solubilities of ILs are predicted by using COSMO-RS model,the results show that[PHSO_(3)MIM][MSA]is a promising candidate for the liquid phase Beckmann rearrangement of CHO into CPL.Finally,a theoretical model of the H-bond interactions between ILs and CHO is further confirmed to support the advance of reaction mechanism.A feasible way is provided for the CPL production technique in the liquid phase Beckmann rearrangement reaction.

关键词： Liquid phase Beckmann rearrangement Imidazolium-based ionic liquids COSMO-RS calculations H-bond

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