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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 {2. 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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Antitumor effects of a novel photosensitizer-mediated photodynamic therapy and its influence on the cell transcriptome

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Oncology Research 2024年第5期32卷 911-923页

作者： JINGJING CHEN DAN WANG ZEQUN WANG MENGYUAN HAN HOUQING YIN WENTING ZHOU RIBAI YAN YAN pan department of Pharmacology School of PharmacyChangzhi Medical CollegeChangzhiChina2 Department of PharmacologySchool of Basic Medical SciencesHealth Science CenterPeking UniversityBeijingChina3 Beijing Key Laboratory of Tumor Systems BiologyPeking UniversityBeijingChina4 Department of PharmacologyXinjiang Medical UniversityUrumqiChina5 School of Pharmaceutical SciencesPeking UniversityBeijingChina

Photodynamic therapy(PDT)is a promising cancer *** study investigated the antitumor effects and mechanisms of a novel photosensitizer meso-5-[ρ-diethylene triamine pentaacetic acid-aminophenyl]−10,15,2.-triphenyl-porphyrin(DTP)mediated PDT(DTP-PDT).Cell viability,reactive oxygen species(ROS),and apoptosis were measured with a Cell Counting Kit-8 assay,DCFH-DA fluorescent probe,and Hoechst staining,*** apoptosis-and autophagy-related proteins were examined using western *** sequencing was used to screen differentially expressed mRNAs(DERs),and bioinformatic analysis was performed to identify the major biological events after *** results show that DTP-PDT inhibited cell growth and induced ROS generation in MCF-7 and SGC7901 *** ROS scavenger N-acetyl-L-cysteine(NAC)and the P38 MAPK inhibitor SB2.3580 alleviated DTP-PDT-induced ***-PDT induced cell apoptosis together with upregulated Bax and downregulated Bcl-2.which could also be inhibited by NAC or *** level of LC3B-Ⅱ,a marker of autophagy,was increased by DTP-PDT.A total of 3496 DERs were obtained after *** Ontology and Kyoto Encyclopedia of Genes and Genomes analyses indicated that DERs included those involved in cytosolic ribosomes,the nuclear lumen,protein binding,cell cycle,protein targeting to the endoplasmic reticulum,and ribosomal DNA *** Ontology and Reactome enrichment analyses indicated that DERs were associated with a variety of cancers and cell cycle ***-protein interaction results demonstrated that cdk1 and rps2.a ranked in the top 10 interacting ***,DTP-PDT could inhibit cell growth and induce cell apoptosis and autophagy,partly through ROS and the P38 MAPK signaling *** associated with the cell cycle,ribosomes,DNA replication,and protein binding may be the key changes in DTP-PDT-mediated cytotoxicity.

关键词： Photodynamic therapy ROS Apoptosis Autophagy Bioinformatic analysis

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Self-assembly of differentiated dental pulp stem cells facilitates spheroid human dental organoid formation and prevascularization

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World Journal of Stem Cells 2024年第3期16卷 287-304页

作者： Fei Liu Jing Xiao Lei-Hui Chen Yu-Yue pan Jun-Zhang Tian Zhi-Ren Zhang Xiao-Chun Bai School of Basic Medical sciences Southern Medical UniversityGuangzhou 510515Guangdong ProvinceChina department of Health Management Guangdong Second Provincial General HospitalGuangzhou 510317Guangdong ProvinceChina Guangdong Provincial Key Laboratory of Tumor Interventional Diagnosis and Treatment Zhuhai People’s Hospital Affiliated with Jinan UniversityZhuhai 519000Guangdong ProvinceChina Centre of Reproduction Development and AgingFaculty of Health SciencesUniversity of MacaoMacao 999078China department of Stomatology Guangdong Second Provincial General HospitalGuangzhou 510317Guangdong ProvinceChina Zhuhai Institute of Translational Medicine Zhuhai Hospital Affiliated with Jinan UniversityZhuhai 519000Guangdong ProvinceChina department of Cell Biology School of Basic Medical SciencesSouthern Medical UniversityGuangzhou 510515Guangdong ProvinceChina

BACKGROUND The self-assembly of solid organs from stem cells has the potential to greatly expand the applicability of regenerative *** cells can self-organise into microsized organ units,partially modelling tissue function and *** pulp organoids have been used to recapitulate the processes of tooth development and related ***,the lack of vasculature limits the utility of dental pulp *** To improve survival and aid in recovery after stem cell transplantation,we demonstrated the three-dimensional(3D)self-assembly of adult stem cell-human dental pulp stem cells(hDPSCs)and endothelial cells(ECs)into a novel type of spheroid-shaped dental pulp organoid in vitro under hypoxia and conditioned medium(CM).METHODS During culture,primary hDPSCs were induced to differentiate into ECs by exposing them to a hypoxic environment and *** hypoxic pretreated hDPSCs were then mixed with ECs at specific ratios and conditioned in a 3D environment to produce prevascularized dental pulp *** biological characteristics of the organoids were analysed,and the regulatory pathways associated with angiogenesis were *** The combination of these two agents resulted in prevascularized human dental pulp organoids(Vorganoids)that more closely resembled dental pulp tissue in terms of morphology and ***-cell RNA sequencing of dental pulp tissue and RNA sequencing of Vorganoids were integrated to analyse key regulatory pathways associated with *** biomarkers forkhead box protein O1 and fibroblast growth factor 2.were identified to be involved in the regulation of *** In this innovative study,we effectively established an in vitro model of Vorganoids and used it to elucidate new mechanisms of angiogenesis during regeneration,facilitating the development of clinical treatment strategies.

关键词： Human dental pulp stem cells Prevascularized organoids Integrated analyses Angiogenesis Forkhead box protein O1

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Des-Arg(9)bradykinin as a causal metabolite for autism spectrum disorder

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World Journal of Psychiatry 2024年第1期14卷 88-101页

作者： Zhong-Yu Huang Zi-pan Lyu Hong-Gui Li Hua-Zhi You Xiang-Na Yang Cai-Hui Cha Center for Medical Research on Innovation and Translation Institute of Clinical MedicineGuangzhou First People’s HospitalSchool of MedicineSouth China University of TechnologyGuangzhou 510000Guangdong ProvinceChina School of biological sciences Nanyang Technological UniversityNanyang Ave 639798Singapore department of Pediatrics First Affiliated Hospital of Guangzhou University of Chinese MedicineGuangzhou 510405Guangdong ProvinceChina department of Nutrition First Affiliated Hospital of Guangzhou University of Chinese MedicineGuangzhou 510405Guangdong ProvinceChina department of Pediatric Traditional Chinese Medicine Clinic Guangzhou Women and Children's Medical CenterGuangzhou 510632Guangdong ProvinceChina department of Psychology Guangzhou Women and Children's Medical CenterGuangzhou 510632Guangdong ProvinceChina

BACKGROUND Early diagnosis and therapeutic interventions can greatly enhance the developmental trajectory of children with autism spectrum disorder(ASD).However,the etiology of ASD is not completely *** presence of confounding factors from environment and genetics has increased the difficulty of the identification of diagnostic biomarkers for *** To estimate and interpret the causal relationship between ASD and metabolite profile,taking into consideration both genetic and environmental *** A two-sample Mendelian randomization(MR)analysis was conducted using summarized data from large-scale genome-wide association studies(GWAS)including a metabolite GWAS dataset covering 453 metabolites from 782. European and an ASD GWAS dataset comprising 18381 ASD cases and 2.969 healthy *** in plasma were set as exposures with ASD as the main *** causal relationships were estimated using the inverse variant weight(IVW)*** also performed leave-one-out sensitivity tests to validate the robustness of the *** on the drafted metabolites,enrichment analysis was conducted to interpret the association via constructing a protein-protein interaction network with multi-scale evidence from databases including Infinome,SwissTargetPrediction,STRING,and *** Des-Arg(9)-bradykinin was identified as a causal metabolite that increases the risk of ASD(β=0.2.2.SE=0.064,P_(IVW)=4.64×10^(-5)).The association was robust,with no significant heterogeneity among instrument variables(P_(MR Egger)=0.663,P_(IVW)=0.906)and no evidence of pleiotropy(P=0.949).Neuroinflammation and the response to stimulus were suggested as potential biological processes mediating the association between Des-Arg(9)bradykinin and *** Through the application of MR,this study provides practical insights into the potential causal association between plasma metabolites and *** findings offer perspectives for the discovery of diagnos

关键词： Des-Arg(9)bradykinin Autism spectrum disorder Mendelian randomization Metabolite Enrichment analysis

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Unveiling the secrets of diatom-mediated calcification:Implications for the biological pump

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Science china Earth sciences 2024年第9期67卷 2895-2909页

作者： Yiwen pan Yifan LI Chen-Tung Arthur CHEN Zong-Pei JIANG Wei-Jun CAI Yunwen SHEN Zesheng DING Qixian CHEN Yanan DI Wei FAN Chenba ZHU Ying CHEN Ocean College Zhejiang UniversityZhoushan 316021China Hainan Institute of Zhejiang university Sanya 570203China department of Oceanography Sun Yat-Sen UniversityGaoxiong 80424China School of Marine Science and Policy University of DelawareNewark DE 19716USA Carbon Neutral Innovation Research Center Xiamen UniversityXiamen 361005China

Siliceous diatoms are one of the most prominent actors in the oceans,and they account for approximately 40%of the primary production and particulate organic carbon export *** is believed that changes in carbon flux caused by variations in diatom distribution can lead to significant climate *** the fundamental pathways of diatom-driven carbon sequestration have long been established,there are no reports of CaCO_(3) precipitation induced by marine diatom *** manuscript introduces novel details regarding the enhancement of aragonite precipitation during photosynthesis in Skeletonema costatum in both artificial and natural *** direct measurements of cell surfaces via a pH microelectrode and zeta potential analyzer,it was determined that the diatom-mediated promotion of CaCO_(3) precipitation is achieved through the creation of specific microenvironments with concentrated[CO_(3)^(2.)]and[Ca^(2.)]and/or the dehydrating effect of adsorbed Ca^(2.).Based on this mechanism,it is highly plausible that diatom-mediated calcification could occur in the oceans,an assertion that was supported by the significant deviation of total alkalinity(TA)from the conservative TA-salinity mixing line during a Skeletonema costatum bloom in the East china Sea and other similar *** newly discovered calcification pathway establishes a link between particulate inorganic and organic carbon flux and thus helps in the reassessment of marine carbon export fluxes and CO_(2. sequestration *** discovery may have important ramifications for assessing marine carbon cycling and predicting the potential effects of future ocean acidification.

关键词： Diatom bloom Skeletonema costatum Calcification biological carbon pump Counter carbonate pump

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Propolis as a promising functional ingredient: A comprehensive review on extraction， bioactive properties， bioavailability， and industrial applications

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Food Science and Human Wellness 2024年

作者： Mengyao Liu Xiangxin Li Hualei Chen Fei pan Xing Zheng Maurizio Battino Wenli Tian Wenjun Peng State Key Laboratory of Resource Insects， Institute of Apicultural Research， Chinese Academy of Agricultural sciences School of Food and biological Engineering， Jiangsu university department of Clinical sciences， Faculty of Medicine， Polytechnic {2. of Marche

Propolis is a resinous complex mixture made from plant resins collected by worker bees and mixed with their own secretions. It is rich in polyphenols and flavonoids and thus has a wide range of biological activities and is considered a functional source for promoting human health. However， propolis and its bioactive compounds have poor water solubility， rapid and intense metabolism， and low oral bioavailability， which limits their wide application. In this paper， the main bioactive substances in propolis were summarized， and the biological characteristics and therapeutic potential of propolis and its bioactive substances were discussed. In addition， this paper discussed the factors affecting the bioavailability of propolis and its functional ingredients， focusing on the research progress in improving the bioavailability and bioactivity of propolis and its functional ingredients using nanoencapsulation technology. Finally， the current situation of the global propolis market and the applications of propolis products in the pharmaceutical， food， cosmetic and other industrial fields are discussed， providing useful references for promoting the development of the propolis industry.

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A comparison of optimization theories for energy conservation in heat exchanger groups

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Science Bulletin 2011年第Z1期 449-454页

作者： CHEN Qun1,2.WU Jing3,WANG MoRan4,pan Ning2.& GUO ZengYuan1 1 Key Laboratory for Thermal Science and Power Engineering of Ministry of Education,department of Engineering Mechanics,{2. {2.,Beijing 100084,china 2.department of biological and Agricultural Engineering,{2. of California,Davis CA 95616,USA 3 College of Energy and Power Engineering,Nanjing {2. of Aeronautics and Astronautics,Nanjing 2.0016,china 4 Earth and Environmental sciences Division,Los Alamos National Laboratory,Los Alamos NM 87545,USA

In general,thermal processes can be classified into two categories: heat-work conversion processes and heat transfer processes. Correspondingly,the optimization of thermal processes has to have two different criteria:the well known entropy generation minimization method and the recently proposed entransy dissipation maximization method. This study analyzes the thermal issues in a heat exchanger group,and optimizes the unit arrangements under different constraints based on a suitable optimization crite-rion. The result indicates that the principle of minimum entropy generation rate is valid for optimizing heat exchangers in a ther-modynamic cycle with given boundary temperatures. In contrast,the entransy dissipation maximization is more suitable in heat exchanger optimizations involving only heat transfer processes. Furthermore,the entropy generation rate induced by dumping used streams into ambient surroundings has to be taken into account,except for that originating from the hot and cold-ends of heat exchangers,when using the entropy generation minimization to optimize heat exchangers undergoing a thermodynamic cycle.

关键词： heat exchangers optimization criterion entransy dissipation maximization entropy generation minimization

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Classification of Morchella species from Yunnan and Zhejiang Provinces Based on rDNA ITS Sequences

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食用菌学报 2007年第2期 19-22+91页

作者： SHEN Hong 1,2. CHEN Mingjie 1, ZHAO Yongchang3, pan Yingjie 41 Key Laboratory of Agricultural Genetics and Breeding of Shanghai Institute of Edible Fungi, ShanghaiAcademy of Agricultural sciences, Shanghai 2.1106,{2. 2.icrobiology {2., Nanjing Agriculture university, Nanjing,Jiangsu 2.1195,{2. 3Yunnan Institute of biological Technologies, Yunnan Agricultural Academy, Kunming, Yunnan 6502.5,{2. 4Shanghai Fisheries university, Shanghai 2.0090,{2.

Fourteen Morchella samples (eleven from Yunnan and three from Zhejiang Provinces) were selected on the basis of differences in fruit body morphology. Ribosomal DNA internal transcribed spacers (ITS) were amplified in each case using the universal primer pair, ITS-1 and ITS-4, and the amplification products were purified and sequenced. Comparisons with sequence data in GenBank revealed that the 11 Morchella isolates collected from Yunnan belonged to four species: Morchella elata, Morchella conica, Morchella crassipes and Morchella costata. The three isolates collected from Zhejiang Province (M12. M13 and M14) were designated as unknown Morchella species. When Verpa conica (AJ5442.6) (from the genus Verpa belonging to the same family as Morchella) was taken as the outgroup, the 14 isolates formed three groups, M. elata, M. costata (Group 1); Morchella esculenta, M. conica (Group 2.; and M. crassipes, M12. M13 and M14 (Group 3).

关键词： Morchella ITS sequences Similarity coefficient

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肌动蛋白的原子力显微镜研究(英文)

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生物化学与生物物理学报 2003年第6期35卷 489-494页

作者：张军王远亮谷俐潘君重庆大学教育部生物力学及组织工程重点实验室重庆大学教育部生物力学及组织工程重点实验室重庆400044 重庆医科大学生物学教研室重庆400016 重庆400044

原子力显微镜 (AFM )是一种能够在生理条件下对生物大分子、活细胞表面以及细胞膜下结构进行在体或离体研究的强有力的新型工具 ,具有原子级的成像分辨率和纳牛顿级的力测定功能。目前原子力显微镜已被广泛地应用于生物大分子、超分子... 详细信息

原子力显微镜 (AFM )是一种能够在生理条件下对生物大分子、活细胞表面以及细胞膜下结构进行在体或离体研究的强有力的新型工具 ,具有原子级的成像分辨率和纳牛顿级的力测定功能。目前原子力显微镜已被广泛地应用于生物大分子、超分子体系的结构解析、动力学过程观察 ,分子力学研究及细胞功能鉴定。原子力显微镜能够通过尖锐探针扫描待测样品表面 ,收集被测样品表面地貌坐标数据从而对单分子或细胞进行成像或操作 ,并能通过移动探针、记录探针与样品之间的作用力 ,对生物大分子 (蛋白质、核酸和多糖等 )的结构力学特性进行分析以获取分子构象、功能及其相互关系的有用信息。肌动蛋白是一种细胞内普遍存在 ,具有广泛、复杂生理功能的重要蛋白质 ,原子力显微镜的各项功能已广泛地用于肌动蛋白结构、功能及动力学研究。通过综述原子力显微镜在肌动蛋白研究中的应用 ,阐明了原子力显微镜在现代生命科学研究中的重要意义及巨大应用前景。

关键词：原子力显微术肌动蛋白应用

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Quercetin inhibits truncated isoform of dopamine-and cAMP-regulated phosphoprotein as adjuvant treatment for trastuzumab therapy resistance in HER2.positive breast cancer

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Food Science and Human Wellness 2024年第5期13卷 2653-2667页

作者： Han-Sheng Chang Tzu-Chun Cheng Shih-Hsin Tu Chih-Hsiung Wu You-Cheng Liao Jungshan Chang Min-Hsiung pan Li-Ching Chen Yuan-Soon Ho department of biological Science&Technology College of Life SciencesChina Medical UniversityTaichung 406TaiwanChina Institute of Biochemistry and Molecular Biology College of Life SciencesChina Medical UniversityTaichung 406TaiwanChina department of Surgery School of MedicineCollege of MedicineTaipei Medical UniversityTaipei 110TaiwanChina department of Surgery Taipei Medical University HospitalTaipei 110TaiwanChina Graduate Institute of Medical sciences College of MedicineTaipei Medical UniversityTaipei 110TaiwanChina Institute of Food sciences and Technology National Taiwan UniversityTaipei 106TaiwanChina

Trastuzumab resistance is one of the causes of poor prognosis in patients with human epidermal growth factor receptor 2.HER2.-positive(HER2.)breast cancer(BC).The truncated isoform of dopamine-and cAMPregulated phosphoprotein(t-DARPP)has been reported to be involved in trastuzumab therapy resistance and promoting tumor *** evaluate the t-DARPP expression in BC,paired tumors and surrounding normal tissues were analyzed by real-time polymerase chain reaction and confirmed higher DARPP-32.kDa family mRNA expression in HER2.BC tumor *** established 2.patient-derived xenografts(PDX)mice models to test the efficacy of trastuzumab,named model 1(non-responder)and model 2.responder).t-DARPP and p95-HER2.protein-protein interactions were detected in PDX tumor tissue from non-responders using Förster resonance energy transfer ***,there is no response from the ***,mechanistic studies using transwell and western blot assays demonstrated that t-DARPP could upregulate epithelial-mesenchymal transition signaling proteins,enhance p95-HER2.expression and promote cell *** found that quercetin effectively reduced t-DARPP expression in HER2.BC *** t-DARPP ShRNA-suppressed cells,quercetin synergistically enhanced trastuzumab-induced apoptotic cell death and G2.M phase *** conclusion,the combination of quercetin and trastuzumab treatment by targeting t-DARPP in HER2.BC patients has the potential as a biomarker for mitigating drug resistance.

关键词： p95-Human epidermal growth factor receptor 2 (HER2. HER2.positive breast cancer Quercetin Trastuzumab resistance Truncated isoform of dopamine-and cAMPregulated phosphoprotein

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