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Preliminary Investigation on Coupling MCDA with GLUE to Perform Uncertainty Analysis of a Hydrological Model

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Preliminary Investigation on Coupling MCDA with GLUE to Perf...

Applications of genetic code expansion technology in eukaryotes

作者： P.Vallam X.S.Qin j.j.yu Civil and Environmental Department Nanyang Technological University

Hydrological models are being used for different applications. Quantifying the uncertainty of popular Hydrological models has been well documented, especially with Bayesian methods such as the Generalized Likelihood Uncertainty Estimation(GLUE). However, research studies have often either neglected the lesser known hydrological models or have performed a typical Bayesian analysis of uncertainty. In this paper, the SLURP model’s uncertainty is examined using a novel approach of the GLUE method. Instead of considering the overall Nash Sutcliffe Efficiency(NSE), the NSE values of different magnitudes of flows are considered simultaneously to capture the predictive uncertainties of the SLURP model. By using a Multi-Criterion Decision Analysis(MCDA) method, the NSE values of different flow periods are simultaneously considered when computing the predictive intervals of the SLURP model. Also, the potential issues of using a MCDA based GLUE approach in lieu of the traditional GLUE approach are discussed.

关键词： TOPSIS MCDA bayesian GLUE

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Protein & Cell 2024年第5期15卷 331-363页

作者： Qiao-ru Guo yu j.Cao State Key Laboratory of Chemical Oncogenomic Guangdong Provincial Key Laboratory of Chemical GenomicsPeking University Shenzhen Graduate SchoolShenzhen 518055China Institute of Chemical Biology Shenzhen Bay LaboratoryShenzhen 518132China

Unnatural amino acids(UAAs)have gained significant attention in protein engineering and drug development owing to their ability to introduce new chemical functionalities to *** eukaryotes,genetic code expansion(GCE)enables the incorporation of UAAs and facilitates posttranscriptional modification(PTM),which is not feasible in prokaryotic *** is also a powerful tool for cell or animal imaging,the monitoring of protein interactions in target cells,drug development,and switch ***,there is keen interest in utilizing GCE in eukaryotic *** review provides an overview of the application of GCE in eukaryotic systems and discusses current challenges that need to be addressed.

关键词： genetic code expansion unnatural amino acid eukaryotes basic research therapeutic applications

Extracellular vesicles and angiotensin-converting enzyme 2 in COVID-19 disease

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BIOCELL 2024年第1期48卷 1-8页

作者： yu LIU ROBERT j.KASPER NATALIE j.S.CHOI Department of Family and Community Medicine Northwestern University Feinberg School of MedicineChicagoIllinois

Extracellular vesicles(EVs)are membranous vesicular structures released from almost all eukaryotic cell types under different physiological or pathological *** evidence demonstrates that EVs can serve as mediators of intercellular communication between donor and recipient cells or microorganism-infected and noninfected *** disease 2019(COVID-19)disease is caused by infection of the severe acute respiratory syndrome coronavirus 2(SARS-CoV-2)of host cells in the respiratory system and various extra-pulmonary tissue/organs,resulting in complications of multiple organ *** the cell surface receptor,angiotensin-converting enzyme 2(ACE2)mediates cellular entry of SARS-CoV-2 into the host cells in patients with *** studies have found that ACE2 can be released with EVs,which have been shown to interfere with the entry of the virus into host cells and thus may be involved in COVID-19 *** addition,ACE2,neprilysin(NEP),and thimet oligopeptidase(TOP)are the key enzymes that regulate angiotensin metabolism by converting angiotensin II or angiotensin I to angiotensin 1-7,the latter of which has protective effects in counterbalancing the harmful effects of angiotensin II in COVID-19 *** review summarizes the recent research progress regarding EV-associated ACE2,NEP,and TOP and the perspectives of their potential involvement in the pathophysiology of COVID-19 disease.

关键词： Extracellular vesicles COVID-19 Angiotensin converting enzyme 2 Thimet oligopeptidase

GraphFlow+:Exploiting Conversation Flow in Conversational Machine Comprehension with Graph Neural Networks

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Machine Intelligence Research 2024年第2期21卷 272-282页

作者： jing Hu Lingfei Wu yu Chen Po Hu Mohammed j.Zaki School of Computer Science Central China Normal UniversityWuhan 430079China Pinterest San Francisco 94016USA Meta Mountain View 94039USA Rensselaer Polytechnic Institute Troy 12180USA

The conversation machine comprehension(MC)task aims to answer questions in the multi-turn conversation for a single ***,recent approaches don’t exploit information from historical conversations effectively,which results in some references and ellipsis in the current question cannot be *** addition,these methods do not consider the rich semantic relationships between words when reasoning about the passage *** this paper,we propose a novel model GraphFlow+,which constructs a context graph for each conversation turn and uses a unique recurrent graph neural network(GNN)to model the temporal dependencies between the context graphs of each ***,we exploit three different ways to construct text graphs,including the dynamic graph,static graph,and hybrid graph that combines the *** experiments on CoQA,QuAC and DoQA show that the GraphFlow+model can outperform the state-of-the-art approaches.

关键词： Conversational machine comprehension(MC) reading comprehension question answering graph neural networks(GNNs) natural language processing(NLP)

Males armed with big weapons win fights at limited cost in ant-mimickingjumping spiders

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Current Zoology 2024年第1期70卷 98-108页

作者： Guocheng yu Boon Hui Wong Christina j.Painting Hongze Li Long yu Zengtao Zhang Shichang Zhang Daiqin Li State Key Laboratory of Biocatalysis and Enzyme Engineering and Centre for Behavioral Ecology and Evolution School of Life SciencesHubei UniversityWuhan430062China Departmentof Biological Sciences National University of Singapore14 Science Drive 4Singapore 117543Singapore Te Aka Matuatua School of Science University of WaikatoPrivate Bag 3105Hamilton 3240New Zealand

A core assumption of sexual selection theory is that sexually selected weapons,specialized morphological structures used directly in male con-tests,can improve an individual's reproductive success but only if the bearer can overcome associated costs,the negative effects on the bear-er's fitness ***,recent studies have shown that producing and wielding exaggerated weapons may not necessarily be ***,some traits can be selected for supporting,or compensating for,the expense of producing and wielding such exaggerated weapons.n the ant-mimicking jumping spider Myrmarachne gisti,exaggerated chelicerae are borne only by adult males and not females,showing sexual dimorphism and steep positive allometry with body ***,we determine the potential benefits of bearing exaggerated chelicerae during male contests and explore the potential for costs in terms of prey-capture efficiency and compensation between chelicera size and neighboring trait *** males with longer chelicerae won most of their male-male contests,we found no significant differences in prey-capture effi-ciency between males and females regardless of whether prey was winged or ***'elongated chelicerae thus do not impede their efficiency at capturing ***,we found that the sizes of all neighboring traits are positively correlated with chelicera size,suggesting that these traits may be under correlational *** together,our findings suggest that *** males armed with the exaggerated chelicerae that function as weapons win more fights at limited cost for performance in prey capture and compensate for neighboring structures.

关键词： allometry ant-mimic costs elongated chelicerae threat devices trait compensations

Promoter engineering enables precise metabolic regulation towards efficientβ-elemene production in Ogataea polymorpha

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Synthetic and Systems Biotechnology 2024年第2期9卷 234-241页

作者： Min Ye jiaoqi Gao jingjing Li Wei yu Fan Bai Yongjin j.Zhou Division of Biotechnology Dalian Institute of Chemical PhysicsChinese Academy of Sciences457 Zhongshan RoadDalian116023PR China CAS Key Laboratory of Separation Science for Analytical Chemistry Dalian Institute of Chemical PhysicsChinese Academy of SciencesDalian116023PR China Dalian Key Laboratory of Energy Biotechnology Dalian Institute of Chemical PhysicsChinese Academy of SciencesDalian116023PR China University of Chinese Academy of Sciences Beijing100049PR China

Precisely controlling gene expression is beneficial for optimizing biosynthetic pathways for improving the ***,promoters in nonconventional yeasts such as Ogataea polymorpha are always limited,which results in incompatible gene ***,we expanded the promoter library in *** based on transcriptional data,among which 13 constitutive promoters had the strengths ranging from 0–55%of PGAP,the commonly used strong constitutive promoter,and 2 were growth phase-dependent ***,2 hybrid growth phase-dependent promoters were constructed and characterized,which had 2-fold higher ***,promoter engineering was applied to precisely regulate cellular metabolism for efficient production ofβ-*** glyceraldehyde-3-phosphate dehydrogenase gene GAP was downregulated to drive more flux into pentose phosphate pathway(PPP)and then to enhance the supply of acetyl-CoA by using phosphoketolase-phosphotransacetylase(PK-PTA)*** with the phase-dependent expression of synthase module(ERG20∼LsLTC2 fusion),the highest titer of 5.24 g/L with a yield of 0.037 g/(g glucose)was achieved in strain YY150U under fed-batch fermentation in shake *** work characterized and engineered a series of promoters,that can be used to fine-tune genes for constructing efficient yeast cell factories.

关键词： Promoter library Growth phase-dependent promoters Promoter engineering Precise metabolic regulation Ogataea polymorpha

Addressable structured light system using metasurface optics and an individually addressable VCSEL array

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Photonics Research 2024年第6期12卷 1129-1137页

作者： CHENYANG WU XUANLUN HUANG YIPENG jI TINGyu CHENG jIAXING WANG NAN CHI SHAOHUA yu CONNIE j.CHANG-HASNAIN School of Information Science and Technology Fudan UniversityShanghai 200433China Berxel Photonics Co. Ltd.Shenzhen 518071China Peng Cheng Laboratory Shenzhen 518055China Chinese University of Hong Kong Shenzhen 518172China

Structured-light(SL)based 3D sensors have been widely used in many *** SL is the most widely deployed among all SL sensors due to its light weight,compact size,fast video rate,and low *** transmitter(known as the dot projector)consists of a randomly patterned vertical-cavity surface-emitting laser(VCSEL)array multiplicated by a diffractive optical element(DOE)with a fixed repeated *** that the separation of any two speckles is only one known and fixed number(albeit random),there are no other known scales to cal-ibrate or ***,typical SL sensors require extensive in-factory calibrations,and the depth resolution is limited to 1 mm at-60 cm *** this paper,to the best of our knowledge,we propose a novel dot projector and a new addressable SL(ASL)3D sensor by using a regularly spaced,individually addressable VCSEL array,multiplicated by a metasurface-DOE(MDOE)into a random pattern of the *** turning on or off the VCSELs in the array provides multiple known distances between neighboring speckles,which is used as a“built-in caliper”to achieve higher accuracy of *** as a precise“vernier caliper,”the addressable VCSEL array enables fine control over speckle positions and high detection *** experimentally dem-onstrated that the proposed method can result in sub-hundred-micron level *** new concept opens new possibilities for applications such as 3D computation,facial recognition,and wearable devices.

关键词： speckle light surface

The variation of DOM during long distance water transport by the China South to North Water Diversion Scheme and impact on drinking water treatment

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Frontiers of Environmental Science & Engineering 2024年第5期18卷 85-100页

作者： Hankun Yang yujuan Li Hongyu Liu Nigel j.D.Graham Xue Wu jiawei Hou Mengjie Liu Wenyu Wang Wenzheng yu State Key Laboratory of Environmental Aquatic Chemistry Key Laboratory of Drinking Water Science and TechnologyResearch Center for Eco-Environmental SciencesChinese Academy of SciencesBeijing100085China School of Environment and Municipal Engineering Qingdao Technological UniversityQingdao266033China Colleges of Forestry Northeast Forestry UniversityHarbin150006China Department of Civil and Environmental Engineering Imperial College LondonSouth Kensington CampusLondonSW7 2AZUK School of Chemistry and Chemical Engineering Beijing Institute of TechnologyBeijing100081China State Key Laboratory of Separation Membrane Processes School of Environment Science and EngineeringTiangong UniversityTianjin300387China

In this study,samples were taken from three locations,upstream to downstream,along the central route project of the China South to North Water Diversion(SNWD)scheme in summer and *** were used to reveal the variations of dissolved organic matter(DOM)during the water transfer process,and the effects of these variations on drinking water treatment and disinfection by-products formation potential(DBPs-FP).The results showed that polysaccharides accumulate in summer and reduce in winter with flow distance,which has an important effect on the overall properties of DOM,as well as on the performance of coagulation,ultrafiltration,and the formation of *** substances,and their hydrophilic content,also increased in summer and decreased in winter with flow *** contrast,the concentration of small organic substances(MW≤1000 Da)increased in both summer and winter with flow distance,which affected both nanofiltration(NF)membrane fouling and *** results provide a useful case study of spatial and temporal changes in raw water DOM during long distance water transfer and their impact on the treatment and quality of drinking water from the SNWD.

关键词： Long-distance water transfer The China South to North Water Diversion Scheme Coagulation Membrane filtration Disinfection by-products

Enhanced recovery for liver transplantation: recommendations from the 2022 International Liver Transplantation Society Consensus Conference: towards better clinical care in transplant hepatology

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Hepatobiliary Surgery and Nutrition 2024年第3期13卷 512-515页

作者： yu jun Wong Noreen Singh Norberto Sanchez-Fernandez Aldo j.Montano-Loza Division of Gastroenterology and Liver Unit University of Alberta HospitalEdmontonCanada Division of Transplantation Department of SurgeryUniversity of Alberta HospitalEdmontonCanada

Liver transplantation(LT)was first performed over six decades ago and is currently the standard of care for patients with end-stage liver disease and life-threatening *** have been significant advances in the area of LT;however,it remains a highly morbid,restrictive,expensive and resource-intensive intervention(1).Early recovery for LT(***)is a multimodal concept aimed at promoting faster recovery in patients undergoing *** development of a dedicated protocol for early recovery following LT has been challenging due to the complexity of developing a treatment approach,patient comorbidities associated with decompensated cirrhosis,and low case volume.

关键词： Liver transplantation(LT) outcome recovery