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Comparative transcriptome analysis between rhesus macaques(Macaca mulatta) and crab-eating macaques(M. fascicularis)

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Zoological Research 2024年第2期45卷 299-310页

作者： yu-Xiang mao Yamei Li Zikun Yang Ning Xu Shilong Zhang Xuankai Wang Xiangyu Yang Qiang Sun Yafei mao Institute of Neuroscience State Key Laboratory of NeuroscienceCenter for Excellence in Brain Science&Intelligence TechnologyChinese Academy of SciencesShanghai 200031China Shanghai Center for Brain Science and Brain-Inspired Intelligence Technology Shanghai 201210China University of Chinese Academy of Sciences Beijing 100049China Key Laboratory of Genetic Evolution&Animal Models Chinese Academy of SciencesKunmingYunnan 650201China Bio-X Institutes Key Laboratory for the Genetics of Developmental and Neuropsychiatric DisordersMinistry of EducationShanghai Jiao Tong UniversityShanghai 200030China Zhiyuan College Shanghai Jiao Tong UniversityShanghai 200240China Center for Genomic Research International Institutes of MedicineFourth Affiliated HospitalZhejiang UniversityYiwuZhejiang 322000China

Understanding gene expression variations between species is pivotal for deciphering the evolutionary diversity in phenotypes. Rhesus macaques(Macaca mulatta, MMU)and crab-eating macaques(M. fascicularis, MFA) serve as crucial nonhuman primate biomedical models with different phenotypes. To date, however, large-scale comparative transcriptome research between these two species has not yet been fully explored. Here, we conducted systematic comparisons utilizing newly sequenced RNA-seq data from84 samples(41 MFA samples and 43 MMU samples)encompassing 14 common tissues. Our findings revealed a small fraction of genes(3.7%) with differential expression between the two species, as well as 36.5% of genes with tissue-specific expression in both macaques. Comparison of gene expression between macaques and humans indicated that 22.6% of orthologous genes displayed differential expression in at least two tissues. Moreover,19.41% of genes that overlapped with macaque-specific structural variants showed differential expression between humans and macaques. Of these, the FAM220A gene exhibited elevated expression in humans compared to macaques due to lineage-specific duplication. In summary,this study presents a large-scale transcriptomic comparison between MMU and MFA and between macaques and humans. The discovery of gene expression variations not only enhances the biomedical utility of macaque models but also contributes to the wider field of primate genomics.

关键词： Crab-eating macaques Rhesus macaques Comparative transcriptomics Biomedical models Nonhuman primates RNA-seq Duplicated genes

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Dual-channel mechano-phosphorescence:a combined locking effect with twisted molecular structures and robust interactions

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Light(Science & Applications) 2024年第4期13卷 738-746页

作者： Zongliang Xie Zhu mao Hailan Wang yuxin Xiao Xiayu Zhang Tao yu Zhongfu An Wei Huang Frontiers Science Center for Flexible Electronics Xi’an Institute of Flexible Electronics&Xi’an Institute of Biomedical Materials and EngineeringNorthwestern Polytechnical University127 West Youyi RoadXi’an 710072China. Research&Development Institute of Northwestern Polytechnical University in Shenzhen Shenzhen 518100China. Shenzhen Institutes of Advanced Electronic Materials Shenzhen 518100China. Key Laboratory of Flexible Electronics&Institute of Advanced Materials Nanjing Tech University30 South Puzhu RoadNanjing 211816China

Organic mechanoluminescence materials,featuring dual emission and ultralong phosphorescence characteristics,exhibit significant potential for applications in real-time stress sensing,pressure-sensitive lighting,advanced security marking techniques,and material breakage ***,due to immature molecular design strategies and unclear luminescence mechanisms,these materials remain rarely *** this study,we propose a valuable molecular design strategy to achieve dual-channel *** introducing the arylphosphine oxide group into a highly twisted molecular framework,enhanced intra-and intermolecular interactions could be achieved within rigid structures,leading to dual-channel mechanoluminescence with greatly promoted ultralong *** investigations reveal the substantial boosting effect of intra-and intermolecular interactions on mechanoluminescence and ultralong phosphorescence properties by locking the highly twisted molecular *** work provides a concise and guiding route to develop novel smart responsive luminescence materials for widespread applications in material science.

关键词： channel luminescence locking

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Graphdiyne oxide substrate-enhanced peroxidase-mimicking performance of Ru nanoparticles with physiological pH preference

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Nano Research 2024年第3期17卷 1123-1131页

作者： Cong Xu Wenjie Ma Haozhi Wang Leihou Shao Weiqi Li Ping yu Lanqun mao Beijing National Laboratory for Molecular Science Key Laboratory of Analytical Chemistry for Living BiosystemsInstitute of ChemistryChinese Academy of SciencesBeijing 100190China University of Chinese Academy of Sciences Beijing 100049China State Key Laboratory of Marine Resource Utilization in South China Sea School of Materials Science and EngineeringHainan UniversityHaikou 570228China College of Chemistry Beijing Normal UniversityBeijing 100875China

Modulating electronic structure of metal nanoparticles via metal–support interaction has attracted intense interest in the field of catalytic ***,the roles of supporting substrates in regulating catalytic properties of nanozymes remain *** this study,we find that the use of graphdiyne oxide(GDYO)as the substrate for self-terminating growth of Ru nanoparticles(Ru@GDYO)endows the peroxidase-like activity of Ru nanoparticles with intrinsic physiological pH preference and natural horseradish peroxidase(HRP)comparable *** nanoparticles electrolessly deposited onto GDYO possess a partially oxidized electronic structure owing to limited charge transfer between Ru and GDYO,contributing to the intrinsic physiological pH preference of the peroxidase-mimicking *** importantly,the substrate GDYO plays an influential factor in enhancing catalytic activity,that is,the activity of Ru@GDYO is much higher than that of Ru nanoparticles deposited on other carbon substrates including graphene oxides and *** demonstrate the application of Ru@GDYO nanozyme in neutral solutions,we employ Ru@GDYO with nicotinamide adenine dinucleotide(NAD+)-dependent dehydrogenases in physiological conditions to realize a sustainable cascade reaction by means of forming continuous NAD^(+)/dihydronicotiamide adenine dinucleotide(NADH)*** finding represents a promising perspective on designing high-performance peroxidase-mimicking nanozymes with broader applicability,raising fundamental understanding of structure–activity relationship,and investigating new applications of nanozymes in biological systems.

关键词： nanozyme graphdiyne reactive oxygen species electroless deposition metal–support interaction

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Tailoring electron vortex beams with customizable intensity patterns by electron diffraction holography

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Opto-Electronic Advances 2024年第2期7卷 14-21页

作者： Pengcheng Huo Ruixuan yu Mingze Liu Hui Zhang Yan-qing Lu Ting Xu National Laboratory of Solid-State Microstructures and Collaborative Innovation Center of Advanced Microstructures Nanjing UniversityNanjing 210093China College of Engineering and Applied Sciences Key Laboratory of Intelligent Optical Sensing and Manipulation and Jiangsu Key Laboratory of Artificial Functional MaterialsNanjing UniversityNanjing 210093China

An electron vortex beam(EVB) carrying orbital angular momentum(OAM) plays a key role in a series of fundamental scientific researches, such as chiral energy-loss spectroscopy and magnetic dichroism spectroscopy. So far, almost all the experimentally created EVBs manifest isotropic doughnut intensity patterns. Here, based on the correlation between local divergence angle of electron beam and phase gradient along azimuthal direction, we show that free electrons can be tailored to EVBs with customizable intensity patterns independent of the carried OAM. As proof-of-concept, by using computer generated hologram and designing phase masks to shape the incident free electrons in the transmission electron microscope, three structured EVBs carrying identical OAM are tailored to exhibit completely different intensity patterns. Furthermore, through the modal decomposition, we quantitatively investigate their OAM spectral distributions and reveal that structured EVBs present a superposition of a series of different eigenstates induced by the locally varied geometries. These results not only generalize the concept of EVB, but also demonstrate an extra highly controllable degree of freedom for electron beam manipulation in addition to OAM.

关键词： electron vortex beam orbital angular momentum diffraction holography

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Software Defect Prediction Method Based on Stable Learning

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Computers, Materials & Continua 2024年第1期78卷 65-84页

作者： Xin Fan Jingen mao Liangjue Lian Li yu Wei Zheng yun Ge College of Aerospace Engineering Nanjing University of Aeronautics and AstronauticsNanjing210012China School of Software Nanchang Hangkong UniversityNanchang330029China Software Testing and Evaluation Center Nanchang Hangkong UniversityNanchang330029China

The purpose of software defect prediction is to identify defect-prone code modules to assist software quality assurance teams with the appropriate allocation of resources and *** previous software defect prediction studies,transfer learning was effective in solving the problem of inconsistent project data ***,target projects often lack sufficient data,which affects the performance of the transfer learning *** addition,the presence of uncorrelated features between projects can decrease the prediction accuracy of the transfer learning *** address these problems,this article propose a software defect prediction method based on stable learning(SDP-SL)that combines code visualization techniques and residual *** method first transforms code files into code images using code visualization techniques and then constructs a defect prediction model based on these code *** the model training process,target project data are not required as prior *** the principles of stable learning,this paper dynamically adjusted the weights of source project samples to eliminate dependencies between features,thereby capturing the“invariance mechanism”within the *** approach explores the genuine relationship between code defect features and labels,thereby enhancing defect prediction *** evaluate the performance of SDP-SL,this article conducted comparative experiments on 10 open-source projects in the PROMISE *** experimental results demonstrated that in terms of the F-measure,the proposed SDP-SL method outperformed other within-project defect prediction methods by 2.11%-44.03%.In cross-project defect prediction,the SDP-SL method provided an improvement of 5.89%-25.46% in prediction performance compared to other cross-project defect prediction ***,SDP-SL can effectively enhance within-and cross-project defect predictions.

关键词： Software defect prediction code visualization stable learning sample reweight residual network

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The UDP-glycosyltransferase OsUGT706D2 positively regulates cold and submergence stress tolerance in rice

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The Crop Journal 2024年第3期12卷 732-742页

作者： qing Liu Lanlan Zhang Shuwei Lyu Hang yu Wenjie Huang Liqun Jiang Jing Zhang Bingrui Sun Xingxue mao Pingli Chen Junlian Xing Wenfeng Chen Zhilan Fan Shijuan Yan Chen Li Guangdong Key Laboratory of New Technology in Rice Breeding/Guangdong Rice Engineering Laboratory/Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China(Co-construction by Ministry and Province) Ministry of Agriculture and Rural AffairsRice Research InstituteGuangdong Academy of Agricultural SciencesGuangzhou 510640GuangdongChina Guangdong Key Laboratory for Crop Germplasm Resources Preservation and Utilization Agro-biological Gene Research CenterGuangdong Academy of Agricultural SciencesGuangzhou 510640GuangdongChina

In a genome-wide association study,we identified a rice UDP-glycosyltransferase gene,OsUGT706D2,whose transcription was activated in response to cold and submergence stress and to exogenous abscisic acid(ABA).OsUGT706D2 positively regulated the biosynthesis of tricin-4’-O-(syringyl alcohol)ether-7-O-glucoside at both the transcriptional and metabolic ***706D2 mediated cold and submergence tolerance by modulating the expression of stress-responsive genes as well as the abscisic acid(ABA)signaling *** of function of OsUGT706D2 increased cold and submergence tolerance and loss of function of OsUGT706D2 reduced cold *** positively regulated OsUGT706D2-mediated cold tolerance but reduced submergence *** findings suggest the potential use of OsUGT706D2 for improving abiotic stress tolerance in rice.

关键词： UDP-glycosyltransferase Rice Cold tolerance Submergence tolerance ABA

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Method for rapid warning and activity concentration estimates in online waterγ-spectrometry systems

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Nuclear Science and Techniques 2024年第3期35卷 1-12页

作者： Meng Wang Yi Gu mao-Lin Xiong Liang-Quan Ge qing-Xian Zhang Guo-Qiang Zeng Heng Lu Sheng-Liang Guo College of Nuclear Technology and Automation Engineering Chengdu University of TechnologyChengdu 610059China Applied Nuclear Technology in Geosciences Key Laboratory of Sichuan Province (Chengdu University of Technology)Chengdu 610059China Chengdu New Ray Technology Co.Ltd Chengdu 610052China

Onlineγ-spectrometry systems for inland waters,most of which extract samples in situ and in real time,are able to produce reliable activity concentration measurements for waterborne radionuclides only when they are distributed relatively uniformly and enter into a steady-state diffusion regime in the measurement *** protect residents’health and ensure the safety of the living environment,better timeliness is required for this measurement *** address this issue,this study established a mathematical model of the online waterγ-spectrometry system so that rapid warning and activity estimates can be obtained for water under non-steady-state(NSS)*** addition,the detection efficiency of the detector for radionuclides during the NSS diffusion process was determined by applying the computational fluid dynamics technique in conjunction with Monte Carlo *** this basis,a method was developed that allowed the online waterγ-spectrometry system to provide rapid warning and activity concentration estimates for radionuclides in *** analysis of the NSS-mode measurements of^(40)K radioactive solutions with different activity concentrations determined the optimum warning threshold and measurement time for producing accurate activity concentration estimates for *** experimental results show that the proposed NSS measurement method is able to give warning and yield accurate activity concentration estimates for radionuclides 55.42 and 69.42 min after the entry of a 10 Bq/L^(40)K radioactive solution into the measurement chamber,*** times are much shorter than the 90 min required by the conventional measurement ***,the NSS measurement method allows the measurement system to give rapid(within approximately 15 min)warning when the activity concentrations of some radionuclides reach their respective limits stipulated in the Guidelines for Drinking-water Quality of the WHO,suggesting that this method con

关键词： Water radioactivity monitoring Dynamic detection efficiency Rapid warning Activity estimation

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Microscopic nonlinear optical activities and ultrafast carrier dynamics in layered AgInP_(2)S_(6)

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Photonics Research 2024年第4期12卷 691-700页

作者： ZIXIN WANG NINGNING DONG yu mao CHENDUAN CHEN XIN CHEN CHANG XU ZHOUyuAN YAN JUN WANG Aerospace Laser Technology and Systems Department CAS Key Laboratory of Materials for High-Power LaserShanghai Institute of Optics and Fine MechanicsChinese Academy of SciencesShanghai 201800China Center of Materials Science and Optoelectronics Engineering University of Chinese Academy of SciencesBeijing 100049China CAS Center for Excellence in Ultra-intense Laser Science(CEULS) State Key Laboratory of High Field Laser PhysicsShanghai Institute of Optics and Fine MechanicsChinese Academy of SciencesShanghai 201800China

Since the emergence of graphene, transition metal dichalcogenides, and black phosphorus, two-dimensional materials have attracted significant attention and have driven the development of fundamental physics and optoelectronic devices. Metal phosphorus trichalcogenides(MPX3), due to their large bandgap of 1.3–3.5 eV, enable the extension of optoelectronic applications to visible and ultraviolet(UV) wavelengths.

关键词： nonlinear ultraviolet phosphorus

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Multi-scale data joint inversion of minerals and porosity in altered igneous reservoirs—A case study in the South China Sea

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Petroleum Science 2024年第1期21卷 206-220页

作者： Xin-Ru Wang Bao-Zhi Pan yu-Hang Guo qing-Hui Wang Yao Guan College of Geo-exploration Science and Technology Jilin UniversityChangchun130046JilinChina Research Institute CNOOC Ltd.-ShenzhenShenzhen518000GuangdongChina

There are abundant igneous gas reservoirs in the South China Sea with significant value of research,and lithology classification,mineral analysis and porosity inversion are important links in reservoir ***,affected by the diverse lithology,complicated mineral and widespread alteration,conventional logging lithology classification and mineral inversion become considerably *** the same time,owing to the limitation of the wireline log response equation,the quantity and accuracy of minerals can hardly meet the exploration requirements of igneous *** overcome those issues,this study takes the South China Sea as an example,and combines multi-scale data such as micro rock slices,petrophysical experiments,wireline log and element cutting log to establish a set of joint inversion methods for minerals and porosity of altered igneous ***,we define the lithology and mineral characteristics through core slices and mineral data,and establish an igneous multi-mineral volumetric *** we determine element cutting log correction method based on core element data,and combine wireline log and corrected element cutting log to perform the lithology classification and joint inversion of minerals and ***,it is always difficult to determine the elemental eigenvalues of different minerals in *** paper uses multiple linear regression methods to solve this ***,an integrated inversion technique for altered igneous formations was *** results show that the corrected element cutting log are in good agreement with the core element data,and the mineral and porosity results obtained from the joint inversion based on the wireline log and corrected element cutting log are also in good agreement with the core data from X-ray *** results demonstrate that the inversion technique is applicable and this study provides a new direction for the mineral inversion research of altered igneous formation

关键词： Joint inversion Altered igneous rock Element correction method Lithology identification Multi mineral volume model

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Visceral adipose tissue predicts severity and prognosis of acute pancreatitis in obese patients

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Hepatobiliary & Pancreatic Diseases International 2024年第5期23卷 458-462页

作者： yuan Tian qing Huang yu-Tang Ren Xuan Jiang Bo Jiang Department of Gastroenterology Beijing Tsinghua Changgung HospitalSchool of Clinical MedicineTsinghua UniversityBeijing 102218China

Acute pancreatitis is a common systemic inflammatory disease, manifested by a spectrum of severity, ranging from mild in the majority of patients to severe acute pancreatitis. Patients with severe acute pancreatitis suffer from severe local and systemic complications and organ failure, leading to a poor prognosis. The early recognition of the severe condition is important to improve prognosis. Obesity has risen in tandem with an increase in the severity of acute pancreatitis in recent years. Studies have revealed that adipose tissue, particularly visceral adipose tissue is associated with the prognosis of acute pancreatitis. This review discussed the role of visceral adipose tissue in obese patients with acute pancreatitis and explored the possible mechanism involved.

关键词： Visceral adipose tissue Obesity Acute pancreatitis

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