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ThyroidNet:A Deep Learning Network for Localization and Classification of Thyroid Nodules

Computer Modeling in Engineering & Sciences 2024年第4期139卷 361-382页

作者： Lu Chen Huaqiang Chen Zhikai Pan Sheng Xu Guangsheng Lai Shuwen Chen Shuihua Wang Xiaodong Gu Yudong Zhang Ultrasonic Department Zhongda Hospital Affiliated to Southeast UniversityNanjing210009China School of Physics and Information Engineering Jiangsu Second Normal UniversityNanjing211200China School of Computing and Mathematical Sciences University of LeicesterLeicesterLE17RHUK Department of Information Systems Faculty of Computing and Information TechnologyKing Abdulaziz UniversityJeddah21589Saudi Arabia State Key Laboratory of MillimeterWaves Southeast UniversityNanjing210096China Jiangsu Province Engineering Research Center of Basic Education Big Data Application Jiangsu Second Normal UniversityNanjing211200China School of Software Engineering Quanzhou Normal UniversityQuanzhou362000China Department of Biological Sciences Xi’an Jiaotong-Liverpool UniversitySuzhou215123China

Aim:This study aims to establish an artificial intelligence model,ThyroidNet,to diagnose thyroid nodules using deep learning techniques ***:A novel method,ThyroidNet,is introduced and evaluated based on deep learning for the localization and classification of thyroid ***,we propose the multitask TransUnet,which combines the TransUnet encoder and decoder with multitask ***,we propose the DualLoss function,tailored to the thyroid nodule localization and classification *** balances the learning of the localization and classification tasks to help improve the model’s generalization ***,we introduce strategies for augmenting the ***,we submit a novel deep learning model,ThyroidNet,to accurately detect thyroid ***:ThyroidNet was evaluated on private datasets and was comparable to other existing methods,including U-Net and *** results show that ThyroidNet outperformed these methods in localizing and classifying thyroid *** achieved improved accuracy of 3.9%and 1.5%,***:ThyroidNet significantly improves the clinical diagnosis of thyroid nodules and supports medical image analysis *** research directions include optimization of the model structure,expansion of the dataset size,reduction of computational complexity and memory requirements,and exploration of additional applications of ThyroidNet in medical image analysis.

关键词： ThyroidNet deep learning TransUnet multitask learning medical image analysis

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Single Molecule FRET Study of DNAG Quadruplex

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Chemical Research in Chinese Universities 2002年第2期18卷 103-106页

作者： Jeremy Green Liming Ying David Klenerman Shankar Blasubramanian Department of Chemistry University of CambridgeLensfield RoadCambridge CB21EWUK

The DNA G quadruplex formed by the human telomeric sequence is a potential target for novel anticancer drugs. We have investigated an intramolecular DNA G quadruplex using single molecule fluorescence resonance energy transfer and shown that individual folded quadruplexes can be identified. The mean proximity ratio measured at the single molecule level was consistent with ensemble measurement

关键词： G quadruplex Fluorescence resonance energy transfer(FRET) Single molecule spectroscopy

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Arabinan Metabolism during Seed Development and Germination in Arabidopsis

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Molecular Plant 2009年第5期2卷 966-976页

作者： Leonardo D. Gomez Clare G. Steele-King Louise Jones Jonathan M. Foster Supachai Vuttipongchaikij Simon J. McQueen-Mason CNAP Department of Biology University of York Heslington York YO10 5YW United Kingdom

Arabinans are found in the pectic network of many cell walls, where, along with galactan, they are present as side chains of Rhamnogalacturonan I. Whilst arabinans have been reported to be abundant polymers in the cell walls of seeds from a range of plant species, their proposed role as a storage reserve has not been thoroughly investigated. In the cell walls of Arabidopsis seeds, arabinose accounts for approximately 40% of the monosaccharide composition of non- cellulosic polysaccharides of embryos. Arabinose levels decline to -15% during seedling establishment, indicating that cell wall arabinans may be mobilized during germination. Immunolocalization of arabinan in embryos, seeds, and seedlings reveals that arabinans accumulate in developing and mature embryos, but disappear during germination and seedling establishment. Experiments using 14C-arabinose show that it is readily incorporated and metabolized in growing seedlings, indicating an active catabolic pathway for this sugar. We found that depleting arabinans in seeds using a fungal arabinanase causes delayed seedling growth, lending support to the hypothesis that these polymers may help fuel early seedling growth.

关键词： Cell walls development embryogenesis and seed development Arabidopsis arabinan arabinose carbohydrate metabolism physiology of plant growth.

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Gaussian Backbone-Based Spherical Evolutionary Algorithm with Cross-search for Engineering Problems

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Journal of Bionic Engineering 2024年第2期21卷 1055-1091页

作者： Yupeng Li Dong Zhao Ali Asghar Heidari Shuihua Wang Huiling Chen Yudong Zhang College of Computer Science and Technology Changchun Normal UniversityChangchun130032JilinChina School of Surveying and Geospatial Engineering College of EngineeringUniversity of TehranTehranIran School of Computing and Mathematical Sciences University of LeicesterLeicesterLE17RHUK Department of Biological Sciences Xi’an Jiaotong-Liverpool UniversitySuzhou215123JiangsuChina Key Laboratory of Intelligent Informatics for Safety and Emergency of Zhejiang Province Wenzhou UniversityWenzhou325035China School of Computer Science and Engineering Southeast UniversityNanjing210096China

In recent years,with the increasing demand for social production,engineering design problems have gradually become more and more *** novel and well-performing meta-heuristic algorithms have been studied and developed to cope with this *** them,the Spherical Evolutionary Algorithm(SE)is one of the classical representative methods that proposed in recent years with admirable optimization ***,it tends to stagnate prematurely to local optima in solving some specific ***,this paper proposes an SE variant integrating the Cross-search Mutation(CSM)and Gaussian Backbone Strategy(GBS),called *** this study,the CSM can enhance its social learning ability,which strengthens the utilization rate of SE on effective information;the GBS cooperates with the original rules of SE to further improve the convergence effect of *** objectively demonstrate the core advantages of CGSE,this paper designs a series of global optimization experiments based on IEEE CEC2017,and CGSE is used to solve six engineering design problems with *** final experimental results fully showcase that,compared with the existing well-known methods,CGSE has a very significant competitive advantage in global tasks and has certain practical value in real ***,the proposed CGSE is a promising and first-rate algorithm with good potential strength in the field of engineering design.

关键词： Meta-heuristic algorithms Engineering optimization Spherical evolution algorithm Global optimization

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How Do Sugars Regulate Plant Growth and Development？ New Insight into the Role of Treha Iose-6-Phosphate

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Molecular Plant 2013年第2期6卷 261-274页

作者： Liam E. O'Hara Matthew J. Paul Astrid Wingler Genetics Evolution and Environment University College London Gower Street London WCl E 6BT UK Plant Science Rothamsted Research Harpenden Hertfordshire AL5 2JQ UK

Plant growth and development are tightly controlled in response to environmental conditions that influence the availability of photosynthetic carbon in the form of sucrose. Trehalose-6-phosphate （T6P）, the precursor of trehalose in the biosynthetic pathway, is an important signaling metabolite that is involved in the regulation of plant growth and development in response to carbon availability. In addition to the plant＇s own pathway for trehalose synthesis, formation of T6P or trehalose by pathogens can result in the reprogramming of plant metabolism and development. Developmental processes that are regulated by T6P range from embryo development to leaf senescence. Some of these processes are regulated in interaction with phytohormones, such as auxin. A key interacting factor of T6P signaling in response to the environment is the protein kinase sucrose non-fermenting related kinase-1 （SnRK1）, whose catalytic activity is inhibited by T6R SnRK1 is most likely involved in the adjustment of metabolism and growth in response to starvation. The transcription factor bZlP11 has recently been identified as a new player in the T6P/SnRK1 regulatory pathway. By inhibiting SnRK1, T6P promotes biosynthetic reactions. This regulation has important consequences for crop production, for example, in the developing wheat grain and during the growth of potato tubers.

关键词： bZlP11 carbon availability plant development starvation sucrose non-fermenting related kinase-1 (SnRK1) trehalose trehalose-6-phosphate.

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Double Fertilization in Arabidopsis thaliana Involves a Polyspermy Block on the Egg but Not the Central Cell

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Molecular Plant 2008年第4期1卷 611-619页

作者： Rod J. Scott Susan J. Armstrong James Doughty Melissa Spielman Department of Biology and Biochemistry University of Bath Claverton Down Bath BA2 7AY United Kingdom School of Biosciences The University of Birmingham Edgbaston Birmingham B15 2TT United Kingdom

In animal reproduction, thousands of sperm may compete to fertilize a single egg, but polyspermy blocks prevent multiple fertilization that would otherwise lead to death of the embryo. In flowering plants, successful seed development requires that only two sperm are delivered to the embryo sac, where each must fertilize a female gamete （egg or central cell） to produce the embryo and endosperm. Therefore, polyspermy must be avoided, not only to prevent abnormalities in offspring, but to ensure double fertilization. It is not understood how each sperm fertilizes only one female gamete, nor has the existence of polyspermy barriers been directly tested in vivo. Here, we sought evidence for poly- spermy blocks in angiosperms using the polyspermic tetraspore （tes） mutant of Arabidopsis, which allows in-vivo challenge of egg and central cell with multiple male gametes. We show that tes mutant pollen tubes can transmit more than one sperm pair to an embryo sac, and that sperm from more than one pair can participate in fertilization. We detected endosperms but not embryos with ploidies that could only result from multiple fertilization. Our results therefore demonstrate an in-vivo polyspermy block on the egg, but not the central cell of a flowering plant.

关键词： Double Fertilization Arabidopsis thaliana Involves Polyspermy Block Central Cell

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Managing type 2 diabetes:targeting a microbial enzyme as a novel treatment option

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Signal Transduction and Targeted Therapy 2024年第1期9卷 3-5页

作者： Anikó Keller-Pintér Tamás Korcsmáros Tibor Vellai Department of Biochemistry Albert Szent-Györgyi Medical SchoolUniversity of SzegedSzeged6720Hungary Department of Metabolism Digestion and ReproductionImperial College LondonLondonW120NNUK Quadram Institute Bioscience Norwich Research ParkNorwichNR47UQUK Department of Genetics Eötvös Loránd University(ELTE)Budapest1117Hungary Hungarian Research Network HUN-REN-ELTE Genetics Research Group Budapest1117Hungary

In a recent Science article,Wang and colleagues showed that the dipeptidyl peptidase 4(DPP4)enzyme produced by the gut microbiota can interfere with the effect of host glucagon-like peptide-1(GLP-1)involved in stimulating insulin secretion,and the specific inhibitor of microbial DPP4(mDPP4),combined with clinical inhibitors of host DPP4 isoenzymes,further promotes blood glucose homeostasis.1 These results point out why certain patients respond inadequately to an antidiabetic medication.

关键词： homeostasis stimulating clinical

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Genomic resources for the brown planthopper, Nilaparvata lugens： Transcriptome pyrosequencing and microarray design

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Insect Science 2012年第1期19卷 1-12页

作者： Chris Bass Martin Bay Hebsgaard Joseph Hughes Centre for Sustainable Pest and Disease Management Rothamsted Research Harpenden University of Edinburgh Institute of Evolutionary Biology Kings Buildings Edinburgh Institute of Biodiversity Animal Health and Comparative Medicine College of Medical Veterinary and Life Sciences University of Glasgow Glasgow United Kingdom

The brown planthopper, Nilaparvata lugens is a pest of cultivated rice through- out Asia and is controlled using insecticides and/or resistant rice varieties. This species has developed resistance to many classes of insecticide and biotypes have developed that are vir- ulent against formerly resistant rice cultivars. Insects use a suite of detoxification enzymes, including cytochrome P450s, glutathione S-transferases and carboxyl/cholinesterases to defend themselves against plant secondary metabolites and pesticides. Pyrosequencing on the Roche 454-FLX platform was used to produce a substantial expressed sequence tag （EST） dataset to complement the existing Sanger sequenced ESTs in GenBank. A total of 78 959 reads were combined with the 37 392 publically available Sanger ESTs; these assembled into 8 911 contigs and 10 620 singletons. Analysis of the distribution of tenta- tive unique genes （TUGs） with the gene ontology for biological processes and molecular functions suggests that the 454 and Sanger EST assembly is broadly representative of the N. lugens transcriptome. The brown planthopper transcriptome was found to contain 31 TUGs encoding P450s, nine encoding glutathione S-transferases and 26 encoding car- boxyl/cholinesterases and many of these are putatively involved in the detoxification of xenobiotics. The Agilent eArray platform was used to construct an oligonucleotide mi- croarray populated with probes for ~ 19 000 unigene sequences, including all those known to encode detoxification enzymes. The genomic resources developed in this study will be useful to the community studying this crop pest and will help elucidate the molecular mechanism underlying insecticide resistance and planthopper adaptation to resistant rice cultivars.

关键词： brown planthopper detoxification enzymes insecticide resistance Nilaparvata lugens transcriptome sequencing

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Interactions between Axillary Branches of Arabidopsis

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Molecular Plant 2008年第2期1卷 388-400页

作者： Veronica Ongaro Katherine Bainbridge Lisa Williamson Ottoline Leyser Department of Biology University of York PO Box 373--Area 11York YO10 5YW UK Present address: Institute of Plant Sciences University of Bern CH-3013 Bern Switzerland

Studies of apical dominance have benefited greatly from two-branch assays in pea and bean, in which the shoot system is trimmed back to leave only two active cotyledonary axillary branches. In these two-branch shoots, a large body of evidence shows that one actively growing branch is able to inhibit the growth of the other, prompting studies on the nature of the inhibitory signals, which are still poorly understood. Here, we describe the establishment of two-branch assays in Arabidopsis, using consecutive branches on the bolting stem. As with the classical studies in pea and bean, these consecutive branches are able to inhibit one another＇s growth. Not only can the upper branch inhibit the lower branch, but also the lower branch can inhibit the upper branch, illustrating the bi-directional action of the inhibitory signals. Using mutants, we show that the inhibition is partially dependent on the MAX pathway and that while the inhibition is clearly transmitted across the stem from the active to the inhibited branch, the vascular connectivity of the two branches is weak, and the MAX pathway is capable of acting unilaterally in the stem.

关键词： shoot branching auxin MAX vascularization.

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Signaling at the Root Surface： The Role of Cutin Monomers in Mycorrhization

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Molecular Plant 2013年第5期6卷 1381-1383页

作者： Jeremy D. Murray Donna R. Cousins Kirsty J. Jackson Chengwu Liu Cell and Developmental Biology John Innes Centre Norwich NR4 7UH UK

Most vascular plants interact with arbuscular mycorrhizal fungi （AMF） and are thereby provided significant advantages in nutrient acquisition, especially phosphate. The widespread retention of this symbiosis in vascular plants is testament to its importance and ancient origins. This highlight focuses on the reports of two of the first genes identified through for- ward genetic screens for AMF symbiotic mutants： Required for Abuscular Mycorrhization 1 （RAM1） and RAM2, which respectively encode a GRAS transcription factor and a glyc- erol-3-phosphate acyl-transferase （GPAT） that are required for the formation of fungal entry structures （hyphopodia） on the root surface.

关键词： arbuscular mycorrhizal irst genes identified genetic screens

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