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An enhanced method for predicting and analysing forest fires using an attention-based CNN model

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Journal of Forestry Research 2024年第4期35卷 115-127页

作者： Shaifali Bhatt Usha Chouhan Department of Mathematics Bioinformatics and Computer ApplicationsMANIT BhopalBhopalIndia

Prediction,prevention,and control of forest fires are crucial on at all *** effective fire detection systems can aid in their *** study proposes a novel CNN(convolutional neural network)using an attention blocks module which combines an attention module with numerous input layers to enhance the performance of neural *** suggested model focuses on predicting the damage affected/burned areas due to possible wildfires and evaluating the multilateral interactions between the pertinent *** results show the impacts of CNN using attention blocks for feature extraction and to better understand how ecosystems are affected by meteorological *** selected meteorological data,RMSE 12.08 and MAE 7.45 values provide higher predictive power for selecting relevant and necessary features to provide optimal performance with less operational and computational *** findings show that the suggested strategy is reliable and effective for planning and managing fire-prone regions as well as for predicting forest fire damage.

关键词： CNN Attention module Fire prediction Ecosystem Damage prediction

EMT transcription factors activated circuits:A novel tool to study EMT dynamics and its therapeutic implications

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Synthetic and Systems Biotechnology 2024年第1期9卷 1-10页

作者： Tianying Chen Wangyue Jia Bo Zhang Hanqi Xie Qiong Wu MOE Key Laboratory of bioinformatics Center for Synthetic and System BiologySchool of Life SciencesTsinghua UniversityBeijing100084China

The epithelial mesenchymal transition(EMT)plays significant roles in the progression of cancer and fibrotic ***,this process is reversible,resulting in mesenchymal epithelial transition(MET),which plays an important role in cancer *** is a lack of methods to trace and target EMT cells using synthetic biology circuits,which makes it difficult to study the cell fate or develop targeted *** this study,we introduced responsive EMT sensing circuits,which sense the EMT using specific promoters that respond to transcription factors typical of EMT activation(EMT-TFs).The transcriptional strength of EMT-sensing promoters decreased more than 13-fold in response to the overexpression of the ***,the NOT gate circuits were built by placing the tetR transcription repressor under the control of EMT sensing promoters and expressed an output signal using the constitutive CMV promoter modified with tetO sites This circuit is named EMT sensing and responding *** the EMT transcription factors was present,we observed a 5.8-fold signal increase in the ***,we successfully distinguished mesenchymal breast cancer cells from epithelial cancer cells and repressed the proliferation of EMT tumor cells using our *** EMT sensing and responding circuits are promising tools for the identification of EMT cells,which is crucial for EMT-related disease therapy and investigating the mechanisms underlying the reversible EMT process.

关键词： Epithelial mesenchymal transition Synthetic biology Tumor killing

Refining biome labeling for large-scale microbial community samples:Leveraging neural networks and transfer learning

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Environmental Science and Ecotechnology 2024年第1期17卷 128-137页

作者： Nan Wang Teng Wang Kang Ning Key Laboratory of Molecular Biophysics of the Ministry of Education Hubei Key Laboratory of Bioinformatics and Molecular-imagingCenter of AI BiologyDepartment of Bioinformatics and Systems BiologyCollege of Life Science and TechnologyHuazhong University of Science and TechnologyWuhan430074HubeiChina

Microbiome research has generated an extensive amount of data,resulting in a wealth of publicly accessible *** annotation of these samples is crucial for effectively utilizing microbiome data across scientific ***,a notable challenge arises from the lack of essential annotations,particularly regarding collection location and sample biome information,which significantly hinders environmental microbiome *** this study,we introduce Meta-Sorter,a novel approach utilizing neural networks and transfer learning,to enhance biome labeling for thousands of microbiome samples in the MGnify database that have incomplete *** findings demonstrate that Meta-Sorter achieved a remarkable accuracy rate of 96.7%in classifying samples among the 16,507 lacking detailed biome ***,Meta-Sorter provides precise classifications for representative environmental samples that were previously ambiguously labeled as“Marine”in MGnify,thereby elucidating their specific origins in benthic and water column ***,Meta-Sorter effectively distinguishes samples derived from human-environment interactions,enabling clear differentiation between environmental and human-related *** improving the completeness of biome label information for numerous microbial community samples,our research facilitates more accurate knowledge discovery across diverse disciplines,with particular implications for environmental research.

关键词： Microbial community Transfer learning Sample classification Environmental scientific research novel knowledge discovery

Allosteric modulation of G protein-coupled receptors as a novel therapeutic strategy in neuropathic pain

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Acta Pharmaceutica Sinica B 2024年第1期14卷 67-86页

作者： Chunhao Zhu Xiaobing Lan Zhiqiang Wei Jianqiang Yu Jian Zhang School of Pharmacy Ningxia Medical UniversityYinchuan 750004China Medicinal Chemistry and bioinformatics Center Shanghai Jiao Tong University School of MedicineShanghai 200025China School of Basic Medical Science Ningxia Medical UniversityYinchuan 750004China Medicinal Chemistry and bioinformatics Center Ocean University of ChinaQingdao 266100China State Key Laboratory of Pharmaceutical Biotechnology Nanjing UniversityNanjing 210023China

Neuropathic pain is a debilitating pathological condition that presents significant therapeutic challenges in clinical ***,current pharmacological treatments for neuropathic pain lack clinical efficacy and often lead to harmful adverse *** G protein-coupled receptors(GPCRs)are widely distributed throughout the body,including the pain transmission pathway and descending inhibition pathway,the development of novel neuropathic pain treatments based on GPCRs allosteric modulation theory is gaining *** research has shown that allosteric modulators targeting GPCRs on the pain pathway can effectively alleviate symptoms of neuropathic pain while reducing or eliminating adverse *** review aims to provide a comprehensive summary of the progress made in GPCRs allosteric modulators in the treatment of neuropathic pain,and discuss the potential benefits and adverse factors of this *** will also concentrate on the development of biased agonists of GPCRs,and based on important examples of biased agonist development in recent years,we will describe universal strategies for designing structure-based biased *** is foreseeable that,with the continuous improvement of GPCRs allosteric modulation and biased agonist theory,effective GPCRs allosteric drugs will eventually be available for the treatment of neuropathic pain with acceptable safety.

关键词： Neuropathic pain Allosteric modulators G protein-coupled receptors Analgesia

Fracturing-flooding technology for low permeability reservoirs:A review

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Petroleum 2024年第2期10卷 202-215页

作者： Nianyin Li Shijie Zhu Yue Li Jingrui Zhao Bo Long Fei Chen Erzhen Wang Wentao Feng Yanan Hu Shubei Wang Chen Jiang State Key Laboratory of Oil and Gas Reservoir Geology and Exploitation Southwest Petroleum UniversityChengdu610500China CNPC Southwest Oil and Gas Field company Exploration and Development Research Institute Chengdu 610051China CNPC Southwest Oil and Gas Field company Shale Gas Research Institute Chengdu 610051China Western Drilling Tuha Underground Operation company Turpan838200China Changqing Downhole Technical Service company of Chuanqing Drilling Engineering Co. Ltd.CNPCXi’anChina Petroleum Technology Research Institute Petrochina Changqing Oilfield CompanyXi'anChina

The development of low-permeability oil and gas resources presents a significant challenge to traditional development *** address the problem of“no injection and no production”in low-permeability reservoirs,a novel fracture-injection-production integration technology named fracturing-flooding has been proposed by oilfield *** technology combines the advantages of conventional fracturing,water flooding,and chemical flooding,resulting in improved reservoir physical properties,increased injection,replenished energy,and increased oil displacement *** technology is especially suitable for low-permeability reservoirs that suffer from lack of energy,and strong ***-flooding technology has shown significant results and broad development prospects in some oilfields in *** paper analyzes the development status of fracturing-flooding technology from its development history,technical mechanism,technical characteristics,process flow,types of fracturing and oil displacement fluids,and field *** and numerical simulations of fracturingflooding technology are also *** results suggest that fracturing-flooding technology is more effective than conventional fracturing,water flooding,and chemical flooding in stimulating lowpermeability tight reservoirs and improving oil ***,it has a high input-output ratio and can be utilized for future reservoir stimulation and transformation.

关键词： Fracturing-flooding Enhanced oil recovery Low permeability reservoirs Water flooding Injection Chemical flooding Fracturing

Curation,nomenclature,and topological classification of receptor-like kinases from 528 plant species for novel domain discovery and functional inference

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Molecular Plant 2024年第4期17卷 658-671页

作者： Qian Liu Qiong Fu Yujie Yan Qian Jiang Longfei Mao Long Wang Feng Yu Heping Zheng State Key Laboratory of Chemo/Biosensing and Chemometrics Hunan University College of BiologyChangshaHunan 410082China bioinformatics Center Hunan University College of BiologyChangshaHunan 410082China

Receptor-like kinases(RLKs)are the most numerous signal transduction components in plants and play important roles in determining how different plants adapt to their ecological *** on RLKs has focused mainly on a small number of typical RLK members in a few model *** is an urgent need to study the composition,distribution,and evolution of RLKs at the holistic level to increase our understanding of how RLKs assist in the ecological adaptations of different plant *** this study,we collected the genome assemblies of 528 plant species and constructed an RLK *** this dataset,we identified and characterized 524948 RLK family *** member underwent systematic topological classification and was assigned a gene ID based on a unified nomenclature ***,we identified two novel extracellular domains in some RLKs,designated Xiao and *** analysis of the RLK family revealed that the RLCK-XVII and RLCK-XII-2 classes were present exclusively in dicots,suggesting that diversification of RLKs between monocots and dicots may have led to differences in downstream cytoplasmic *** also used an interaction proteome to help empower data mining for inference of new RLK functions from a global perspective,with the ultimate goal of understanding how RLKs shape the adaptation of different plants to the environments/*** assembled RLK dataset,together with annotations and analytical tools,forms an integrated foundation of multiomics data that is publicly accessible via the metaRLK web portal(http://***).

关键词： RLK RLCK domain signaling pathway receptor-protein interactions

Community-detection-based Approaches for Distribution Network Partition

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CSEE Journal of Power and Energy Systems 2024年第5期10卷 1965-1976页

作者： Mingming Mao Zaijun Wu Dongliang Xu Junjun Xu Qinran Hu School of Electrical Engineering Southeast UniversityNanjing 210096China State Grid Shanghai Municipal Electric Power company Pudong Power Supply company Shanghai 200122China College of Automation and College of Artificial Intelligence Nanjing University of Posts and TelecommunicationsNanjing 210023China

A rational partition is the key prerequisite for the application of distributed algorithms in distribution *** paper proposes community-detection-based approaches to a distribution network partition,including a non-overlapping partition and a border-node partitioning ***,a novel electrical distance is defined to quantify the coupling relationships between buses and it is further used as the edge weight in a transformed equivalent ***,a vertex/link partition community detection approach is applied to over-partition the network into high intra-cohesive and low inter-coupled *** this,a greedy algorithm and a tabu search method are combined to merge these subregions into target numbers according to the scale similarity *** proposed approaches take the influence of three-phase imbalance into consideration and they are decoupled from the power ***,the approaches are tested on an IEEE 123-bus distribution system and the results verify the effectiveness and the credibility of our proposed methods.

关键词： Community detection distribution network partition three-phase imbalance

The behaviors of gas-liquid two-phase flow under gas kick during horizontal drilling with oil-based muds

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Petroleum 2024年第1期10卷 49-67页

作者： Yu Su Huiyun Ma Jianhua Guo Xinyu Shen Zhaoliang Yang Jie Wu Engineering Technology Research Institute PetroChina Southwest Oil&Gas Field CompanyChengdu610017PR China

Natural gas is easily soluble in oil-based muds(OBM),leading to complex flow behavior in wellbores,especially in horizontal *** this study,a new transient flow model considering wellbore-formation coupling and gas solubility on flow behavior is developed to simulate gas kicks during horizontal drilling with ***,the effect of gas solubility on parameters such as bottom-hole pressure(BHP),gas void fraction and mixture velocity in the flow behavior is ***,several critical factors affecting flow behavior are investigated and compared to gas kicks in water-based muds(WBM)where the effect of solubility is *** results show that the invading gas exists as dissolved gas in the OBM and as free gas in the *** the gas escapes from the OBM,the pit gain is zero and there is barely any change in the BHP,annulus return flow rate and mixture velocity,which means that detecting gas kicks through these warning signs can be challenging until they get very close to the surface and develop ***,in WBM drilling,these parameters change quickly with the increasing gas kick ***,for both cases,the longer the horizontal length and the greater reservoir permeability,the greater the decrease in BHP,and the shorter the time for gas to migrate from the bottom-hole to the wellhead.A larger flow rate contributes to a greater initial BHP and a lesser BHP *** research is of value in characterizing gas kick behavior and identifying novel ways for early gas kick detection during horizontal drilling with OBM.

关键词： Flow behavior Gas solubility Gas kick Horizontal drilling Oil-based muds Water-based muds

novel insights on oral squamous cell carcinoma management using long non-coding RNAs

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Oncology Research 2024年第10期32卷 1589-1612页

作者： SUBHAYAN SUR DIMPLE DAVRAY SOUMYA BASU SUPRIYA KHEUR JAYANTA KUMAR PAL SHUCHI NAGAR AVINASH SANAP BHIMAPPA MRUDAGI SAMIR GUPTA Cancer and Translational Research Centre Dr.D.Y.Patil Biotechnology and Bioinformatics InstituteDr.D.Y.Patil VidyapeethTathawadePune411033India bioinformatics Centre Dr.D.Y.Patil Biotechnology and Bioinformatics InstituteDr.D.Y.Patil VidyapeethPune411033India Department of Oral Pathology and Microbiology Dr.D.Y.Patil Dental College&HospitalDr.D.Y.Patil VidyapeethPune411018India Department of Surgical Oncology Dr.D.Y.Patil Medical CollegeHospital&Research CentreDr.D.Y.Patil VidyapeethPune411018India

Oral squamous cell carcinoma(OSCC)is one of the most prevalent forms of head and neck squamous cell carcinomas(HNSCC)with a poor overall survival rate(about 50%),particularly in cases of ***-based cancer biomarkers are a relatively advanced concept,and non-coding RNAs currently have shown promising roles in the detection and treatment of various *** review underlines the function of long non-coding RNAs(lncRNAs)in the OSCC and its subsequent clinical ***,a class of non-coding RNAs,are larger than 200 nucleotides and resemble mRNA in numerous ***,unlike mRNA,lncRNA regulates multiple druggable and non-druggable signaling molecules through simultaneous interaction with DNA,RNA,proteins,or microRNAs depending on concentration and localization in *** of oncogenic lncRNAs and downregulation of tumor suppressor lncRNAs are evident in OSCC tissues and body fluids such as blood and saliva indicating their potential as valuable *** inhibition of candidate oncogenic lncRNAs or overexpression of tumor suppressor lncRNAs showed potential therapeutic roles in in-vivo animal *** types of lncRNAs that are expressed differentially in OSCC tissue and bodily fluids have been systematically documented with specificity and *** review thoroughly discusses the biological functions of such lncRNAs in OSCC cell survival,proliferation,invasion,migration,metastasis,angiogenesis,metabolism,epigenetic modification,tumor immune microenvironment,and drug ***,we addressed the diagnostic and therapeutic importance of lncRNAs in OSCC pre-clinical and clinical systems,providing details on ongoing research and outlining potential future directions for advancements in this *** essence,this review could be a valuable resource by offering comprehensive and current insights into lncRNAs in OSCC for researchers in fundamental and clinical domains.

关键词： Oral squamous cell carcinoma(OSCC) Head and neck cancer Non-coding RNA Long non-coding RNA(lncRNA) Cancer diagnosis