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The relationship between compartment models and their stochastic counterparts:A comparative study with examples of the COVID-19 epidemic modeling

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Journal of Biomedical Research 2024年第2期38卷 175-188,I0016-I0018页

作者： Ziyu Zhao Yi Zhou Jinxing Guan Yan Yan Jing Zhao Zhihang Peng Feng chen Yang Zhao Fang Shao Department of Biostatistics School of Public HealthNanjing Medical UniversityNanjingJiangsu 211166China Nanjing Hanwei Public Health Research Institute Co. LtdNanjingJiangsu 210005China China International Cooperation Center for Environment and Human Health Center for Global HealthNanjing Medical UniversityNanjingJiangsu 211166China The Center of Biomedical Big Data and the Laboratory of Biomedical Big Data Nanjing Medical UniversityNanjingJiangsu 211166China Jiangsu Key Lab of Cancer Biomarkers Prevention and TreatmentCollaborative Innovation Center for Cancer Personalized MedicineNanjing Medical UniversityNanjingJiangsu 211166China

Deterministic compartment models(CMs)and stochastic models,including stochastic CMs and agent-based models,are widely utilized in epidemic ***,the relationship between CMs and their corresponding stochastic models is not well *** present study aimed to address this gap by conducting a comparative study using the susceptible,exposed,infectious,and recovered(SEIR)model and its extended CMs from the coronavirus disease 2019 modeling *** demonstrated the equivalence of the numerical solution of CMs using the Euler scheme and their stochastic counterparts through theoretical analysis and *** on this equivalence,we proposed an efficient model calibration method that could replicate the exact solution of CMs in the corresponding stochastic models through parameter *** advancement in calibration techniques enhanced the accuracy of stochastic modeling in capturing the dynamics of ***,it should be noted that discrete-time stochastic models cannot perfectly reproduce the exact solution of continuous-time ***,we proposed a new stochastic compartment and agent mixed model as an alternative to agent-based models for large-scale population simulations with a limited number of *** model offered a balance between computational efficiency and *** results of this research contributed to the comparison and unification of deterministic CMs and stochastic models in epidemic ***,the results had implications for the development of hybrid models that integrated the strengths of both ***,the present study has provided valuable epidemic modeling techniques and their practical applications for understanding and controlling the spread of infectious diseases.

关键词： compartment models agent-based models compartment-agent mixed models comparative study COVID-19

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An engineered Cas12i nuclease that is an efficient genome editing tool in animals and plants

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The Innovation 2024年第2期5卷 61-69页

作者： Zhiqiang Duan Yafeng Liang Jialei Sun Hongjin Zheng Tong Lin Pengyu Luo Mengge Wang Ruiheng Liu Ying chen Shuhua Guo Nannan Jia Hongtao Xie Meili Zhou Minghui Xia Kaijun Zhao Shuhui Wang Na Liu Yongling Jia Wei Si Qitong chen Yechun Hong Ruilin Tian Jian-Kang Zhu Institute of Advanced Biotechnology and School of Medicine Southern University of Science and TechnologyShenzhen 518055China Bellagen Biotechnology Jinan 250000China Department of Medical Neuroscience School of MedicineKey University Laboratory of Metabolism and Health of GuangdongSouthern University of Science and TechnologyShenzhenGuangdong Province 518055China

The type V-I CRISPR-Cas system is becoming increasingly more attractive for genome ***,natural nucleases of this system often exhibit low efficiency,limiting their ***,we used structure-guided rational design and protein engineering to optimize an uncharacterized Cas12i nuclease,*** a result,we developed Cas-SF01,a Cas12i3 variant that exhibits significantly improved gene editing activity in mammalian ***-SF01 shows comparable or superior editing performance compared to SpCas9 and other Cas12 *** to natural Cas12i3,Cas-SF01 has an expanded PAM range and effectively recognizes NTTN and noncanonical NATN and TTVN *** addition,we identified an amino acid substitution,D876R,that markedly reduced the off-target effect while maintaining high on-target activity,leading to the development of CasSF01^(HiFi)(high-fidelity Cas-SF01).Finally,we show that Cas-SF01 has high gene editing activities in mice and *** results suggest that CasSF01 can serve as a robust gene editing platform with high efficiency and specificity for genome editing applications in various organisms.

关键词： system attractive rational

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Belowground Bud Bank Is Insensitive to Short-Term Nutrient Addition in the Meadow Steppe of Inner Mongolia

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Phyton-International Journal of Experimental Botany 2024年第6期93卷 1129-1141页

作者： Jin Tao Jiatai Tian Dongmei Li Jinlei Zhu Qun Ma Zhiming Zhang Jungang chen Yipeng Liu Jianqiang Qian College of Forestry Henan Agricultural UniversityZhengzhou450002China Institute of Ecological Conservation and Restoration Chinese Academy of ForestryBeijing100093China Institute of Applied Ecology Chinese Academy of SciencesShenyang110164China Institute of Botany Chinese Academy of SciencesBeijing100093China Liaoning Metallurgical Geological Exploration Research Institute Co. Anshan114038China

Human activities and industrialization have signiﬁcantly increased soil nutrients,such as nitrogen(N)and phos-phorus(P),profoundly impacting the composition and structure of plant community,as well as the ecosystem functions,especially in nutrient-limited ***,as the key propagule pool of perennial grasslands,how belowground bud bank and its relationship with aboveground vegetation respond to short-term changes in soil nutrients was still *** this study,we conducted a short-term(2021–2022)soil fertilization experiment with N addition(10 g N m^(-2) yr^(-1))and P addition(5 g N m^(-2) yr^(-1))in the meadow steppe of Inner Mongolia,China,to explore the responses of belowground bud bank,aboveground shoot population and their relationships(represented by the ratio of bud to shoot density-meristem limitation index(MLI))for the whole community and three plant functional groups(perennial rhizomatous grasses-PR,perennial bunchgrasses-PB,and perennial forbs-PF)to nutrient *** short-term nutrient addition had no signiﬁcant inﬂuences on belowground bud density,aboveground shoot density,and MLI of the whole plant *** functional groups showed different responses to soil ***ﬁcally,N addition signiﬁcantly increased the bud density and shoot density of PR,especially in combination with P addition.N addition reduced the shoot density of PF but had no inﬂuence on its bud density and *** addition had signiﬁcant effects on the three indicators of *** study indicates that the belowground bud bank and its relationship with aboveground vegetation in temperate meadow steppe are insensitive to short-term soil fertilization,but plant functional groups exhibit speciﬁc responses in terms of population regeneration,which implies that plant community composition and ecosystem functions will be changed under the ongoing global change.

关键词： Clonal trait population regeneration community dynamics soil resource availability nitrogen addition

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Design,synthesis,and biological evaluation of benzo[4,5]thieno[2,3-d]pyrimidine derivatives as novel HIV-1 NNRTIs

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Chinese Chemical Letters 2024年第6期35卷 344-348页

作者： Bairu Meng Zongji Zhuo Han Yu Sining Tao Zixuan chen Erik De Clercq Christophe Pannecouque Dongwei Kang Peng Zhan Xinyong Liu Department of Medicinal Chemistry Key Laboratory of Chemical Biology(Ministry of Education)School of Pharmaceutical SciencesCheeloo College of MedicineShandong UniversityJi’nan 250012China Laboratory of Virology and Chemotherapy Rega Institute for Medical ResearchK.U.LeuvenLeuven B-3000Belgium China-Belgium Collaborative Research Center for Innovative Antiviral Drugs of Shandong Province Ji’nan 250012China

Inspired by our previous studies to discover novel human immunodeficiency virus-1(HIV-1)nonnucleoside reverse transcriptase inhibitors(NNRTIs)by targeting the tolerant region II of the NNRTIs binding pocket(NNIBP),a series of novel benzo[4,5]thieno[2,3-d]pyrimidine derivatives were designed through structure-based drug design as novel potent HIV-1 *** results showed that compound16b was the most active inhibitor,exhibiting 50% effective concentration(EC50)values from 0.021μmol/L to 0.298μmol/L against wild-type(WT)and a panel of NNRTIs-resistant HIV-1 ***,16b was demonstrated with a significantly low 50% cytotoxicity concentration(CC_(50))value(>200μmol/L)and high selectivity index(SI)*** addition,16b yielded moderate reverse transcriptase(RT)enzyme inhibition with a 50% inhibition concentration(IC_(50))value of 0.183μmol/L,which demonstrated that it acted as HIV-1 *** binding mode of 16b with RT was also illustrated via molecular ***,this work provided a novel lead compound for developing potent HIV-1 NNRTIs.

关键词： HIV-1 NNRTIs DAPYs Tolerant regionⅡ Drug design

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基于C#语言与ArcGIS Engine的开采沉陷预计系统开发

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煤矿安全 2024年第8期55卷 184-190页

作者：赵兵朝陈迪陈攀王京滨冯杰西安科技大学能源学院西部矿井开采及灾害防治教育部重点实验室

为了预计煤层开采引发的地表移动变形，基于极坐标系的概率积分法，借助C#语言和ArcGIS Engine组件工具库设计开发了矿区开采沉陷预计系统。开采沉陷预计系统适用于不规则形状的开采工作面，能够对开采区域地表各点不同开采时间后的下... 详细信息

为了预计煤层开采引发的地表移动变形，基于极坐标系的概率积分法，借助C#语言和ArcGIS Engine组件工具库设计开发了矿区开采沉陷预计系统。开采沉陷预计系统适用于不规则形状的开采工作面，能够对开采区域地表各点不同开采时间后的下沉、水平移动、水平变形、倾斜、曲率进行预计，并对预计结果进行后处理，绘制地表移动变形云图。以陕西省某矿308工作面开采为例，根据工作面的开采条件、地层岩性等特征选取概率积分参数并代入本系统进行地表移动变形预计，将结果与实测地表移动变形进行对比分析。结果表明：使用该系统预计的地表下沉值与实测下沉值的相对误差小于10%，且下沉盆地形态与实际基本吻合，该系统的预计结果较为可靠，对矿区的开采沉陷预计具有一定的适用性。

关键词：开采沉陷概率积分法 ArcGIS Engine C#语言预计系统

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Treatment of bilateral developmental dysplasia of the hip joint with an improved technique:A case report

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World Journal of Clinical Cases 2024年第7期12卷 1320-1325页

作者： Xing-Xing Yu Jian-Ye chen Hong-Sheng Zhan Ming-Da Liu Yun-Fei Li Yu-Yan Jia College of Traditional Chinese Medicine Changchun University of Traditional Chinese MedicineChangchun 130117Jilin ProvinceChina Shi's Traumatology Medical Center Shuguang Hospital Affiliated to Shanghai University of Traditional Chinese MedicineShanghai 201203China College of Traditional Chinese Medicine The Affiliated Hospital of Changchun University of Chinese MedicineChangchun 130021Jilin ProvinceChina

BACKGROUND Developmental dysplasia of the hip(DDH)is a common osteoarticular deformity in pediatric orthopedics.A patient with bilateral DDH was diagnosed and treated using our improved technique"(powerful overturning acetabuloplasty)"combined with femoral rotational shortening *** SUMMARY A 4-year-old girl who was diagnosed with bilateral DDH could not stand normally,and sought surgical treatment to solve the problem of double hip extension and *** this child had high dislocation of the hip joint and the acetabular index was high,we changed the traditional acetabuloplasty to"powerful turnover acetabuloplasty"combined with femoral rotation shortening *** the short-term postoperative follow-up(1,3,6,9,12,and 15 months),the child had no discomfort in her lower *** the braces and internal fixation plates were removed,formal rehabilitation training was actively carried *** Our"powerful overturning acetabuloplasty"combined with femoral rotational shortening osteotomy is feasible in the treatment of DDH in *** technology may be widely used in the clinic.

关键词： Developmental dysplasia of the hip Improved technique Case report

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Characteristics and Risk Factors for Pediatric Sepsis

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Current Medical Science 2024年第3期44卷 648-656页

作者： Yong-bing ZHU Tong-lin LIU Qi DAI Shu-fan LIU Peng XIONG Hao HUANG Yi YUAN Tian-nan ZHANG Yu chen Department of Pediatric Intensive Care Unit Tongji HospitalTongji Medical CollegeHuazhong University of Science and TechnologyWuhan430030China

Objective Sepsis is considered a major cause of health loss in children and had high mortality and ***,there is no reliable model for predicting the prognosis of pediatric patients with *** study aimed to analyze the clinical characteristics of sepsis in children and assess the risk factors associated with poor prognosis in pediatric sepsis patients to identify timely interventions and improve their *** This study analyzed the clinical indicators and laboratory results of septic patients hospitalized in the Pediatric Intensive Care Unit of Tongji Hospital,Tongji Medical College,Huazhong University of Science and Technology,China,from January 1,2019,to December 31,*** factors for sepsis were identified by logistic regression *** A total of 355 children with sepsis were enrolled,with 333 children(93.8%)in the good prognosis group,and 22 children(6.2%)in the poor prognosis *** them,there were 255 patients(71.8%)in the sepsis group,and 100 patients(28.2%)in the severe sepsis *** length of hospital stay in the poor prognosis group was longer than that in the good prognosis group(P0.05),and the platelet(PLT),albumin(ALB),and hemoglobin(Hb)levels were lower in the poor prognosis group(P<0.01).The IL-8 levels in the severe sepsis group were higher than those in the sepsis group(P<0.05).Multiple logistic regression analysis suggested that lower Hb levels,ALB levels,peak PLT counts,and higher IL-1βlevels were independent risk factors for poor prognosis in children with *** Lower Hb,ALB,and PLT counts and elevated IL-1βare independent risk factors for poor prognosis in children with sepsis.

关键词： pediatric sepsis inflammation severity prognosis risk factors

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Rh(Ⅱ)catalyzed efficient sigmatropic rearrangement reaction of pyridotriazoles and sulfides

Green Synthesis and Catalysis

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Green Synthesis and Catalysis 2024年第2期5卷 77-79页

作者： Yuting chen Guanghui Lv Zhiyang Li Meiling Ye Tianle Huang Li Hai Yong Wu Key Laboratory of Drug-Targeting and Drug Delivery System of the Education Ministry and Sichuan Province Sichuan Engineering Laboratory for Plant-Sourced Drug and Sichuan Research Center for Drug Precision Industrial TechnologyWest China School of PharmacySichuan UniversityChengdu610041China Department of Pharmacy Taihe HospitalHubei University of MedicineShiyan442000China

The[2,3]-and[1,2]-sigmatropic rearrangement reactions between pyridotriazoles and sulfides catalyzed by rhodium(II)were *** utilization of pyridotriazoles as the carbene precursors in this kind of reaction efficiently... 详细信息

关键词： Pyridotriazole Sulfide -Sigmatropic rearrangement -Sigmatropic rearrangement Rhodium catalysis

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Mucinous neoplasm of the appendix:A case report and review of literature

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World Journal of Gastrointestinal Surgery 2024年第3期16卷 944-954页

作者： Hao-cheng Chang Jung-cheng Kang Ta-Wei Pu Ruei-Yu Su Chao-Yang chen Je-Ming Hu Department of Surgery Tri-Service General HospitalTaipei 114TaiwanChina Division of Colon and Rectal Surgery Department of SurgeryTaiwanChina Adventist HospitalTaipei 105TaiwanChina Division of Colon and Rectal Surgery Department of SurgeryTri-Service General Hospital Songshan BranchNational Defense Medical CenterTaipei 105TaiwanChina Division of Colon and Rectal Surgery Department of SurgeryTri-Service General HospitalNational Defense Medical CenterTaipei 114TaiwanChina Department of Pathology Tri-Service General HospitalNational Defense Medical CenterTaipei 105TaiwanChina Department of Pathology and Laboratory Medicine Taoyuan Armed Forces General HospitalTaoyuan 325TaiwanChina

BACKGROUND Appendiceal mucinous neoplasms(AMNs),although not classified as rare,are relatively uncommon tumors most often discovered incidentally during colorectal *** identification of AMNs is difficult due to non-specific sym-ptoms,overlapping tumor markers with other conditions,and the potential for *** underscores the urgent need for precision in diagnosis to pre-vent severe *** SUMMARY This case report describes the unexpected discovery and treatment of a low-grade AMN(LAMN)in a 74-year-old man undergoing laparoscopic hemicolectomy for transverse colon adenocarcinoma(AC).Preoperatively,non-specific gastroin-testinal symptoms and elevated tumor markers masked the presence of *** tumor,presumed to be an AMN peritoneal cyst intraoperatively,was con-firmed as LAMN through histopathological *** neoplasm exhibited mucin accumulation and a distinct immunohistochemical profile:Positive for Ho-meobox protein CDX-2,Cytokeratin 20,special AT-rich sequence-binding protein 2,and Mucin 2 but negative for cytokeratin 7 and Paired box gene *** profile aids in distinguishing appendiceal and ovarian mucinous *** recovery was uncomplicated,and the patient initiated adjuvant chemotherapy for the colon *** This case highlights the diagnostic complexity of AMNs,emphasizing the need for vigilant identification to avert potential complications,such as pseudomyxoma peritonei.

关键词： Adenocarcinoma Appendiceal neoplasms Low-grade appendiceal mucinous neoplasm Peritoneal neoplasms Pseudomyxoma peritonei Case report

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RNA-seq analysis of a zebrafish caudal fin cell line in response to infection with spring viraemia of carp virus

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Aquaculture and Fisheries 2024年第2期9卷 181-192页

作者： Wenji Huang Ning Ji Xin Zhao Jiahong Guo Jianhua Feng Kangyong chen Yaxin Wu Junya Wang Jun Zou Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources Ministry of EducationShanghai Ocean UniversityShanghai201306China International Research Center for Marine Biosciences Ministry of Science and TechnologyShanghai Ocean UniversityShanghai201306China National Demonstration Center for Experimental Fisheries Science Education Shanghai Ocean UniversityShanghai201306China Laboratory for Marine Biology and Biotechnology Qingdao National Laboratory for Marine Science and TechnologyQingdao266071China

A cell line,termed ZFIN,was established from the caudal fin of zebrafish and was shown to be susceptible to spring viremia of carp virus(SVCV).The ZFIN cells are epithelial like cells and have a moderate plasmid transfection efficiency of 13.9%.Using an RNA-seq approach,differentially expressed genes(DEGs)regulated by SVCV were *** of SVCV gave rise to 3931 DEGs and up-regulated DEGs were mostly enriched into the biological regulation and cellular processes,among which pathways for the type I interferon signaling and the response to exogenous dsRNA were the top two GO *** KEGG signaling pathways including TLR signaling pathway,RLR receptor signaling pathway,cytosolic DNA-sensing pathway,NLR signaling pathway,cytokine-cytokine receptor interaction and ferroptosis were significantly *** genes including ifnφ1,isg15 and mx were significantly *** addition,key DEGs involved in autophagy were *** results indicate that the ZFIN cell line provides a useful in vitro tool for study on the gene functions and cellular responses to viral infection in fish.

关键词： Caudal fin cells SVCV RNA-seq DEGs Innate antiviral response

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