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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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Silurian integrative stratigraphy,biotas,and paleogeographical evolution of the Qinghai-Tibetan Plateau and its surrounding areas

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Science China Earth Sciences 2024年第4期67卷 1005-1035页

作者： Zhongyang CHEN Qing CHEN Guangxu WANG Xiang fang peng TANG Guanzhou YAN Wenwei YUAN Bing HUANG Xiaole ZHANG Kui YAN Yuandong ZHANG Yi WANG State Key Laboratory of Palaeobiology and Stratigraphy Nanjing Institute of Geology and PalaeontologyChinese Academy of SciencesNanjing 210008China University of Chinese Academy of Sciences Beijing 100049China

The Silurian palaeontology and stratigraphy of the Qinghai-Tibetan Plateau have been studied for more than100 *** the launch of the Second Tibetan Plateau Scientific Expedition and Research,it is necessary to update the summaries of the Silurian stratigraphy and fossil assemblages of the Qinghai-Tibetan Plateau and their correlation with its surrounding *** this study,we have selected 33 sections from the Qinghai-Tibetan Plateau and its surroundings areas,summarised the available data in terms of stratigraphic regionalisation,lithostratigraphy,chronostratigraphy,and biostratigraphy,and divided the study area into four stratigraphic provinces:the Xizang-Western Yunnan-Western Sichuan Province,the KunlunQilian Province,the South China Province,and the Tarim *** general,the Silurian strata in the Qinghai-Tibetan Plateau is more complete than those in other areas of *** studies of the vertebrate faunas,sporomorph assemblages,and brachiopod faunas of the study area indicate a closer geographical relationship between the South China,Tarim,and Indochina palaeoplates,than previously *** with the surrounding areas where Silurian strata have been extensively studied,the study of Silurian strata in the main part of the Qinghai-Tibetan Plateau is still in the preliminary *** the future,it is necessary to conduct research on the age,distribution,and resource potential of basal Silurian black shales to provide new directions for shale gas exploration and development in *** shallow marine strata of the middle to upper Silurian require further *** that the Silurian System in the Qinghai-Tibetan Plateau is more complete,it has the potential to supplement and improve the study of the carbon isotope stratigraphy of the Silurian in China.

关键词： Qinghai-Tibetan Plateau Silurian Stratigraphic regionalisation Lithostratigraphy Biostratigraphy Palaeogeographical evolution

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A mitochondria-targeted H_(2)S-activatable fluorogenic probe for tracking hepatic ischemia-reperfusion injury

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Chinese Chemical Letters 2024年第6期35卷 370-375页

作者： Bin fang Jiaqi Yang Limin Wang Haoqin Li Jiaying Guo Jiaxin Zhang Qingyuan Guo Bo peng Kedi Liu Miaomiao Xi Hua Bai Li Fu Lin Li School of Materials Science and Engineering Northwestern Polytechnical UniversityXi’an 710072China Frontiers Science Center for Flexible Electronics Xi’an Institute of Flexible Electronics(IFE)and Xi’an Institute of Biomedical Materials&EngineeringNorthwestern Polytechnical UniversityXi’an 710072China Key laboratory of Flexible Electronics of Zhejiang Province Ningbo Institute of Northwestern Polytechnical UniversityNingbo 315103China The Institute of Flexible Electronics(IFE Future Technologies)Xiamen UniversityXiamen 361005China Wuhan National Laboratory for Optoelectronics-Advanced Biomedical Imaging Facility Huazhong University of Science and TechnologyWuhan 430074China TANK Medicinal Biology Institute of Xi’an Xi’an 710032China

Hepatic ischemia-reperfusion injury(HIRI)is the cause of postoperative hepatic dysfunction and failure,and even *** an important biological effector molecule,hydrogen sulfide(H_(2)S)of mitochondria as a gasotransmitter that is usually used to protect against acute HIRI ***,the exact relationship between HIRI and mitochondrial H_(2)S remains tangled due to the lack of an effective analytical ***,we have fabricated a mitochondria-targeted H_(2)S-activatable fluorogenic probe(Mito-GW)to explore the stability of mitochondrial H_(2)S and track the changes of mitochondrial H_(2)S during the *** virtue of pyridinium electropositivity and its amphiphilicity,Mito-GW could accumulate in *** goes through an analyte-prompted immolation when reacts with H_(2)S,resulting in the releasing of the fluorophore(GW).Therefore,the extent of Mito-GW conversion to GW can be used to evaluate the changes of mitochondrial H_(2)S level in living cells and *** proof-of-principle,we have used MitoGW to demonstrate the mitochondria H_(2)S-levels increase and then decrease during HIRI in vitro and in *** research highlights the tremendous potential of Mito-GW as a mitochondrial H_(2)S fluorogenic probe in elucidating the pathogenesis of HIRI,providing a powerful tool for promoting future research on hepatology.

关键词： Mitochondria-targeted Bioimaging H2S-activatable Fluorogenic probe Hepatic ischemia-reperfusion injury(HIRI)

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Punicalagin prevents obesity-related cardiac dysfunction through promoting DNA demethylation in mice

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Food Science and Human Wellness 2024年第3期13卷 1465-1474页

作者： Shengjie Pei run Liu Qingqing Ma peng Jiang Xin He Zhongshi Qi Jiacheng fang Xu Yang Zirui Yao Xiaoqian Liu Xianfeng Jing Lei Chen Duo Li Institute of Nutrition&Health Qingdao UniversityQingdao 266071China School of Public Health Qingdao UniversityQingdao 266071China Central Laboratory Guizhou Aerospace HospitalZunyi 563000China Health Centers of Licha Town Qingdao 266071China College of Computer Science and Technology Qingdao UniversityQingdao 266071China

The aim of this study was to investigate whether punicalagin(PU)could prevent obesity-related cardiac dysfunction by promoting DNA demethy lation,and to explore its possible mechanism.C57BL/6J mice were fed with standard diet,high-fat diet(HFD),HFD supplemented with resveratrol,low-dose PU(LPU)and high-dose PU(HPU)for 8 *** with HFD group,body weight was significantly lower in PU treatment groups,number of cardionwocytes and the protein level of myosin heavy chain 7B were significantly higher in PU treatment *** of 5-hydroxymethylcytosine and 5-formylcytosine were significantly lower in HFD group than in other *** with the HFD group,the protein level of ten-eleven translocation enzyme(TET)2 was significantly higher in PU treatment groups,p-AMP-activated protein kinase(AMPK)was significantly higher in LPU *** of total antioxidant capacity and the protein levels of complexesⅡ/Ⅲ/Ⅴ,oxoglutarate dehydrogenase,succinate dehydrogenase B and fumarate hdrolase were significantly lower in HFD group than PU treatment *** ratio of(succinic acid+fumaric acid)/a-ketoglutarate was significantly higher in HFD group than other *** conclusion,PU up-regulated TETs enzyme activities and TET2 protein stability through alleviating mitochondrial dysfunction and activating AMPK,so as to promote DNA demethylation,thus preventing obesity-related cardiac dysfunction.

关键词： DNA demethylation Mitochondrial function Obesity-related cardiac dysfunction Punicalagin Ten-eleven translocation family enzymes

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Novel lactylation-related signature to predict prognosis for pancreatic adenocarcinoma

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World Journal of Gastroenterology 2024年第19期30卷 2575-2602页

作者： Tian peng fang Sun Jia-Chun Yang Mei-Hong Cai Man-Xiu Huai Jia-Xing Pan Fei-Yu Zhang Lei-Ming Xu Department of Gastroenterology Xinhua Hospital Affiliated to Shanghai Jiao Tong UniversityShanghai 200092China

BACKGROUND Lactate,previously considered a metabolic byproduct,is pivotal in cancer progression and maintaining the immunosuppressive tumor *** investigations confirmed that lactate is a primary regulator,introducing recently described post-translational modifications of histone and non-histone proteins,termed lysine *** adenocarcinomas are characterized by increased glycolysis and lactate ***,our understanding of lactylation-related genes in pancreatic adenocarcinomas remains *** To construct a novel lactylation-related gene signature to predict the survival of patients with pancreatic *** RNA-seq and clinical data of pancreatic adenocarcinoma(PDAC)were obtained from the GTEx(Genotype-Tissue Expression)and TCGA(The Cancer Genome Atlas)databases via Xena Explorer,and GSE62452 datasets from *** on lactylation-related genes were obtained from publicly available *** expressed genes(DEGs)were acquired by using R package“DESeq2”in *** COX regression analysis,LASSO Cox and multivariate Cox regressions were produced to construct the lactylation-related prognostic *** analyses,including functional enrichment,ESTIMATE,and CIBERSORT,were performed to analyze immune status and treatment responses in patients with pancreatic *** and normal human cell lines were subjected to western blot analysis under lactic acid intervention;two PDAC cell lines with the most pronounced lactylation were ***,RT-PCR was employed to assess the expression of LRGs genes;SLC16A1,which showed the highest expression,was selected for further ***16A1-mediated lactylation was analyzed by immunofluorescence,lactate production analysis,colony formation,transwell,and wound healing assays to investigate its role in promoting the proliferation and migration of PDAC *** vivo validation was performed using an established tumor *** In this stud

关键词： Pancreatic adenocarcinoma Lactylation Prognosis Immunotherapy Tumor microenvironment

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CPL-active hybrid copper(Ⅰ) halides enabled by cation inclusion with chiral crown-ether

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Science China Chemistry 2024年第10期67卷 3283-3290页

作者： peng Fan Li-Xuan Cai Xiao-fang Duan Fan Yin Chen-Chen Li Zhong-Hua Deng Xiao-Zhen Li Qing-Fu Sun College of Chemistry and Materials Science Fujian Normal University State Key Laboratory of Structural Chemistry Fujian Institute of Research on the Structure of MatterChinese Academy of Sciences Fujian College University of Chinese Academy of Sciences Strait Institute of Flexible Electronics (Future Technologies) Fujian Key Laboratory of Flexible ElectronicsFujian Normal University and Strait Laboratory of Flexible Electronics

Chiral hybrid metal halides with high photoluminescence quantum yield（PLQY） and superior dissymmetry factor(glum) are promising candidates for circularly polarized luminescence（CPL） emitting ***,it is a great challenge to achieve both high glumand large ***,we report a new supramolecular strategy to fabricate chiral hybrid Cu（Ⅰ）-halides with nearunity quantum yields and intense CPL *** dissymmetry factor can be dramatically modulated by tuning the hostguest *** to the chirality and variable conformations of the host-guest complexes,a series of chiral[G@LR/S]2Cu4I6have been *** incorporation of different cations within the chiral LR/Shosts leads to variations of packing modes along the c-axis and different extent of distortions in the[Cu4I6]*** them,[H3O@LR/S]+cations are stacked based on Van der Waals interactions and hierarchically self-assemble into a right/left-handed helix in[H3O@LR/S]2Cu4I6,which results in a high glumof-7×10-3and a large PLQY of 96.92%.Notably,[G@LR/S]2Cu4I6shows promising applications in single-component white light emitting diodes（WLEDs）,exhibiting a maximum dissymmetry factor of -1.2×*** effective host-guest complexation and oriented hierarchical self-assembly provide an effective strategy for the development of high-performance CPL materials.

关键词： host-guest interaction circularly polarized luminescence copper iodide cluster hierarchical self-assembly chirality

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The occurrence characteristics of oil in shales matrix from organic geochemical screening data and pore structure properties:An experimental study Author links open overlay panel

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Petroleum Science 2024年第1期21卷 1-13页

作者： Zi-Zhi Lin Jun-Qian Li Shuang-fang Lu Qin-Hong Hu peng-Fei Zhang Jun-Jie Wang Qi Zhi Hong-Sheng Huang Na Yin Yue Wang Tian-Chen Ge National Key Laboratory of Deep Oil and Gas China University of Petroleum(East China)Qingdao 266580ShandongChina School of Geosciences China University of Petroleum(East China)Qingdao 266580ShandongChina Sanya Offshore Oil&Gas Research Institute Northeast Petroleum UniversitySanya 572025HainanChina College of Earth Science and Engineering Shandong University of Science and TechnologyQingdao 266590ShandongChina

The occurrence characteristics of shale oil are of great significance to the movability of shale *** this study,the occurrence characteristics of oil in the shale matrix at Funing Formation shale in Subei Basin were quantitatively evaluated by organic geochemistry and microscopic pore structure characterization *** Multiple Isothermal Stages Pyrolysis(MIS)experiment results show that the content of total oil,adsorbed oil,and free oil in the shales are 3.15-11.25 mg/g,1.41-4.95 mg/g,and 1.74-6.51 mg/g,*** which the silicon-rich shale has the best *** relative content of free oil shows an increasing trend in pores with pore diameters greater than 3 *** the relative content of free oil reaches 100%,the pore size of silicon-rich shale is about 200 nm,while that of calcium-rich shale,clay-rich shale,and siliceous mixed shale is about 10 *** occurrence law of adsorbed oil is opposite to that of free oil,which indicates that shale oil will occur in the pores and fractures in a free state in a more extensive pore size range(>200 nm).This study also enables us to further understand the occurrence characteristics of shale oil under the interaction of occurrence state and occurrence space.

关键词： Shale oil Occurrence characteristics Sequential solvent extraction Low-temperature nitrogen adsorption Funing Formation Dongtai Depression

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Construction of a bivalent vaccine candidate against HAdV4/HAdV7 based on capsid-display strategy via Red-homologous recombination and counter-selection methodology

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Biosafety and Health 2024年第2期6卷 70-79页

作者： peng Wang Yunting Shao Xichun Yang Wenning Zhang Jianguang Zhou fang Huang Shuang Liu Jiping Zheng Chengjun Wu Shanhu Li Department of Cell Engineering Beijing Institute of BiotechnologyBeijing 100850China School of Basic Medical Sciences Faculty of MedicineDalian University of TechnologyDalian 116024China Lab of Microbiological Engineering School of Life and Health SciencesHainan UniversityHaikou 570228China

Human adenoviruses(HAdvs)are major respiratory ***,human adenovirus type 4(HAdV4)and human adenovirus type 7(HAdV7)are known for causing fever and pneumonia,with docu-mented cases of fatalities among the *** recent years,HAdV4/HAdv7 has been implicated in caus-ing substantial outbreaks,leading to increased morbidity in multiple *** HAdV4 and HAdV7 infections have been reported in North America,Asia,Europe,Africa,South America,Oceania,and the Middle *** fatalities occurred in North America(the United States)and Asia(China and Singapore).Engineered recombinant adenoviruses have played a crucial role as vaccine *** this study,we con-structed a recombinant adenovirus,Ad4ITRmut-Ad7E3,and evaluated it in vitro and in *** observed that the replication rate of Ad4ITRmut-Ad7E3 was lower than that of the RI-67 strain,indicating that the mutation of inverted terminal repeats(ITRs)weakened the replication ability of *** of BALB/c mice with the bivalent Ad4ITRmut-Ad7E3 vaccine strain,administered by intraperitoneal injection and oral gavage,resulted in the elicitation of neutralizing antibodies targeting HAdV4 and *** finding not only pro-vides a novel method and technique for the efficient construction of a polyvalent recombinant adenovirus vac-cine candidate against HAdV4 and HAdv7 but also against other prevalent adenovirus serotypes such as HAdV3,HAdV11,HAdV14,and HAdv55,from various regions.

关键词： Bivalent adenovirus vaccine Capsid-display strategy ITRs modification Hexon epitope replacement

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Upregulation of α-ENaC induces pancreatic β-cell dysfunction,ER stress,and SIRT2 degradation

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Journal of Biomedical Research 2024年第3期38卷 241-255页

作者： Xue Zhang Dan Zhang Lei Huo Xin Zhou Jia Zhang Min Li Dongming Su peng Sun fang Chen Xiubin Liang Department of Pathophysiology Nanjing Medical UniversityNanjingJiangsu 211166China Department of Pathology Nanjing Drum Tower Hospitalthe Affiliated Hospital of Nanjing University Medical SchoolNanjingJiangsu 210009China Key Laboratory of Human Functional Genomics of Jiangsu Province Department of Biochemistry and Molecular BiologyNanjing Medical UniversityNanjingJiangsu 211166China Department of Pathology Nanjing Medical UniversityNanjingJiangsu 211166China

Islet beta cells(β-cells)produce insulin in response to high blood glucose levels,which is essential for preserving glucose ***-gated ion channels inβ-cells,including Na+,K+,and Ca2+channels,aid in the release of *** epithelial sodium channel alpha subunit(α-ENaC),a voltage-independent sodium ion channel,is also expressed in human pancreatic endocrine ***,there is no reported study on the function of ENaC in theβ-*** the current study,we found thatα-ENaC was expressed in human pancreatic glandule and pancreatic isletβ-*** the pancreas of db/db mice and high-fat diet-induced mice,and in mouse isletβ-cells(MIN6 cells)treated with palmitate,α-ENaC expression was ***α-ENaC was overexpressed in MIN6 cells,insulin content and glucose-induced insulin secretion were significantly *** the other hand,palmitate injured isletβ-cells and suppressed insulin synthesis and secretion,but increasedα-ENaC expression in MIN6 ***,α-ENaC knockout(Scnn1a−/−)in MIN6 cells attenuatedβ-cell disorder induced by ***,α-ENaC regulated the ubiquitylation and degradation of sirtuin 2 inβ-cells.α-ENaC also modulatedβ-cell function in correlation with the inositol-requiring enzyme 1 alpha/X-box binding protein 1(IRE1α/XBP1)and protein kinase RNA-like endoplasmic reticulum kinase/C/EBP homologous protein(PERK/CHOP)endoplasmic reticulum stress *** results suggest thatα-ENaC may play a novel role in insulin synthesis and secretion in theβ-cells,and the upregulation ofα-ENaC promotes isletβ-cell *** conclusion,α-ENaC may be a key regulator involved in isletβ-cell damage and a potential therapeutic target for type 2 diabetes mellitus.

关键词： α-ENaC pancreaticβ-cells type 2 diabetes mellitus endoplasmic reticulum stress sirtuin 2

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Electroacupuncture Promotes Angiogenesis in Mice with Cerebral Ischemia by Inhibiting miR-7

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Chinese Journal of Integrative Medicine 2024年第6期30卷 543-550页

作者： YU Qian SHU Shi JU Xin-yao peng Wei REN Xue-qi SI Shu-han SONG Shi-zhen XIE Xue-yun fang Bang-jiang ZHOU Shuang School of Acupuncture-Moxibustion and Tuina Shanghai University of Traditional Chinese MedicineShanghai201203China College of Basic Medicine Shanghai University of Traditional Chinese MedicineShanghai201203China Department of Emergency Longhua HospitalShanghai University of Traditional Chinese MedicineShanghai200032China

Objective To observe the angiogenesis effect of electroacupuncture(EA)at Shuigou acupoint(GV 26)in the treatment of cerebral ischemia,and explore the value of miRNA-7(miR-7)in *** First,48 mice were randomly divided into sham operation,middle cerebral artery occlusion(MCAO)model,and EA treatment *** 9 mice were divided into carrier control group,miR-7 knockout group and miR-7 overexpression group(n=3 each group).Finally,20 mice were divided into model and carrier control group,model and miR-7 knockout group,EA treatment and carrier control group and EA treatment and miR-7 overexpression group,with 3–6 mice in each *** MCAO model was established in the MCAO and EA *** deficit score and 2,3,5-triphenyltetrazolium chloride(TTC)staining were used to evaluate the severity of cerebral ***-eosin staining was used to describe basic pathological *** was used to quantify cerebral microvessel ***-time PCR and Western blot were used to detect the expression of miR-7 and its downstream target genes Krüppel-like factor 4/vascular endothelial growth factor(KLF4/VEGF)and angiopoietin-2(ANG-2)in the ischemic cerebral *** After EA,neurological deficit scores and infarction volumes decreased,and the density of cerebral microvessels *** the MCAO group,miR-7 expression was higher than that in the sham group(P<0.01).After EA at GV 26,miR-7 expression decreased(P<0.01)and the expression of downstream target genes KLF4/VEGF and ANG-2 increased as compared with the MCAO group(P<0.01).After EA combined with overexpression of miR-7,the expression of downstream target genes KLF4/VEGF and ANG-2 decreased compared to the control EA group(P<0.01).After miR-7 knockdown,the expression of KLF4/VEGF and ANG-2 increased(P<0.05 or P<0.01).Conclusions EA could promote angiogenesis in MCAO mice likely by inhibiting the expression of miR-7 and relieving inhibition of downstream target genes KLF4/VEG

关键词： electroacupuncture cerebral ischemia miRNA-7 angiogenesis Shuigou(GV 26) acupuncture points

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