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Identifying concepts from medical images via transfer learning and image retrieval

MATHEMATICAL BIOSCIENCES AND ENGINEERING 2019年第4期16卷 1978-1991页

作者： Wang, xuwen zhang, Yu Guo, Zhen Li, Jiao Chinese Acad Med Sci Inst Med Informat & Lib Peking Union Med Coll Beijing 100020 Peoples R China

Automatically identifying semantic concepts from medical images provides multimodal insights for clinical research. To study the effectiveness of concept detection on large scale medical images, we reconstructed over 230,000 medical image-concepts pairs collected from the ImageCLEFcaption 2018 evaluation task. A transfer learning-based multi-label classification model was used to predict multiple high-frequency concepts for medical images. Semantically relevant concepts of visually similar medical images were identified by the image retrieval-based topic model. The results showed that the transfer learning method achieved F1 score of 0.1298, which was comparable with the state of art methods in the ImageCLEFcaption tasks. The image retrieval-based method contributed to the recall performance but reduced the overall F1 score, since the retrieval results of the search engine introduced irrelevant concepts. Although our proposed method achieved second-best performance in the concept detection subtask of ImageCLEFcaption 2018, there will be plenty of further work to improve the concept detection with better understanding the medical images.

关键词： concept detection transfer learning multi-label classification medical image retrieval LDA

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The YDA-MKK4/MKK5-MPK3/MPK6 Cascade Functions Downstream of the RGF1-RGI Ligand-Receptor Pair in Regulating Mitotic Activity in Root Apical Meristem

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Molecular Plant 2020年第11期13卷 1608-1623页

作者： Yiming Shao Xinxing Yu xuwen Xu Yong Li Wenxin Yuan Yan Xu Chuanzao Mao Shuqun zhang Juan Xu State Key Laboratory of Plant Physiology and Biochemistry College of Life SciencesZhejiang UniversityHangzhouZhejiang 310058China Division of Biochemistry University of MissouriColumbiaMO 65211USA Department of Molecular Cellular and Developmental BiologyYale UniversityNew HavenCT 06511USA

The mitotic activity of root apical meristem(RAM)is critical to primary root growth and *** studies have identified the roles of ROOT GROWTH FACTOR 1(RGF1),a peptide ligand,and its receptors,RGF1 INSENSITIVEs(RGIs),a clade of five leucine-rich-repeat receptor-like kinases,in promoting cell division in the RAM,which determines the primary root ***,the downstream signaling components remain *** this study,we identify a complete mitogen-activated protein kinase(MAPK or MPK)cascade,composed of YDA,MKK4/MKK5,and MPK3/MPK6,that functions downstream of the RGF1-RGI ligand-receptor *** to the rgi1/2/3/4/5 quintuple mutant,loss-of-function mutants of MPK3 and MPK6,MKK4 and MKK5,or YDA show a short-root phenotype,which is associated with reduced mitotic activity and lower expression of PLETHORA 1(PLT1)/PLT2 in the ***,MPK3/MPK6 activation in response to exogenous RGF1 treatment is impaired in the rgi1/2/3/4/5 quintuple,yda single,and mkk4 m kk5 double *** analyses demonstrated that the expression of constitutively active MKK4,MKK5,or YDA driven by the RGI2 promoter can rescue the short-root phenotype of the rgi1/2/3/4/5 *** together,these results suggest that the YDA-MKK4/MKK5-MPK3/MPK6 cascade functions downstream of the RGF1-RGI ligand-receptor pair and upstream of PLT1/PLT2 to modulate the stem cell population and primary root growth in Arabidopsis.

关键词： root meristem MPK3/MPK6 RGF1-RGIs PLT1/PLT2 signaling pathway Arabidopsis

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α-Amylase and tyrosinase inhibitory activities, phenolic contents, and antioxidant capacities of wild and cultivated blueberries

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JOURNAL OF FOOD PROCESSING AND PRESERVATION 2021年第1期45卷 e15087-e15087页

作者： Tian, Sizhu Li, xuwen Zang, Shuang Jin, Yongri zhang, Ziwei Yu, Yong Jilin Univ Coll Chem Changchun Peoples R China Jilin Univ Coll Instrumentat & Elect Engn West Minzhu St 938 Changchun 130061 Peoples R China

The phenolic compound contents, antioxidant capacities, and alpha-amylase and tyrosinase inhibitory activities of 10 wild and 19 cultivated blueberries grown in northeast China were evaluated. The results showed that the alpha-amylase inhibitory activities of the blueberries represented, by 1/IC50, correlated with their total phenolic contents (TPCs). Moreover, the tyrosinase inhibitory activities correlated with the total anthocyanin contents (TACs). High-performance liquid chromatography and electrospray mass spectrometry were conducted to determine and identify seven phenolic acids. The average caffeic acid contents of the cultivated and wild blueberries were 277.37 and 17.71 mu g/g, respectively. The total phenolic, anthocyanin, and flavonoid contents were determined. Wild blueberries have higher TPCs, alpha-amylase inhibitory activities, and antioxidant capacities. Cultivated blueberries have higher TACs and exhibit tyrosinase inhibitory activities similar to those of the wild ones. Practical applications This study revealed that wild blueberries have high alpha-amylase inhibitory activities and are effective as natural alpha-amylase inhibitors for the treatment of diabetes. In addition, wild blueberries were found to be rich in phenolics and have high antioxidant capacities. Thus, because of these properties, wild blueberry products with antidiabetic and antioxidant potential can be developed for use in biomedical and pharmaceutical industries.

关键词： Amylases

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Biochemical and structural characterization of the first-discovered metazoan DNA cytosine-N4 methyltransferase from the bdelloid rotifer Adineta vaga

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JOURNAL OF BIOLOGICAL CHEMISTRY 2023年第8期299卷 105017页

作者： Zhou, Jujun Horton, John R. Kaur, Gundeep Chen, Qin Li, xuwen Mendoza, Fabian Wu, Tao Blumenthal, Robert M. zhang, Xing Cheng, Xiaodong Univ Texas MD Anderson Canc Ctr Dept Epigenet & Mol Carcinogenesis Houston TX 77030 USA Baylor Coll Med Dept Mol & Human Genet Houston TX USA Univ Toledo Coll Med & Life Sci Dept Med Microbiol & Immunol Program Bioinformat Toledo OH 43614 USA

Much is known about the generation, removal, and roles of 5-methylcytosine (5mC) in eukaryote DNA, and there is a growing body of evidence regarding N6-methyladenine, but very little is known about N4-methylcytosine (4mC) in the DNA of eukaryotes. The gene for the first metazoan DNA methyltransferase generating 4mC (N4CMT) was reported and characterized recently by others, in tiny freshwater invertebrates called bdelloid rotifers. Bdelloid rotifers are ancient, apparently asexual animals, and lack canonical 5mC DNA methyltransferases. Here, we characterize the kinetic properties and structural features of the catalytic domain of the N4CMT protein from the bdelloid rotifer Adineta vaga. We find that N4CMT generates high-level methylation at preferred sites, (A/C)CG(T/C/A), and low-level methylation at disfavored sites, exemplified by ACGG. Like the mammalian de novo 5mC DNA methyltransferase 3A/3B (DNMT3A/3B), N4CMT methylates CpG dinucleotides on both DNA strands, generating hemimethylated intermediates and eventually fully methylated CpG sites, particularly in the context of favored symmetric sites. In addition, like DNMT3A/3B, N4CMT methylates non-CpG sites, mainly CpA/TpG, though at a lower rate. Both N4CMT and DNMT3A/3B even prefer similar CpGflanking sequences. Structurally, the catalytic domain of N4CMT closely resembles the Caulobacter crescentus cell cycle-regulated DNA methyltransferase. The symmetric methylation of CpG, and similarity to a cell cycle-regulated DNA methyltransferase, together suggest that N4CMT might also carry out DNA synthesis-dependent methylation following DNA replication.

关键词： DNA methylation N4-methylcytosine metazoan cytosine-N4 DNA methyltransferase bdelloid rotifer Adineta vaga

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Fetal growth prediction: Establishing fetal growth prediction curves in the second trimester

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TECHNOLOGY AND HEALTH CARE 2021年第1_suppl期29卷 S345-S350页

作者： Wang, Yan Bao, Xinyu zhang, Song Yang, Lin Liu, Guoli Yang, Yimin Li, xuwen Hao, Dongmei Chen, Aiqing Liu, Xiaohong Shao, Jing Peking Univ Peoples Hosp Beijing 100044 Peoples R China Beijing Univ Technol Fac Environm & Life Sci Beijing 100124 Peoples R China Beijing Int Sci & Technol Cooperat Base Intellige Beijing 100124 Peoples R China Beijing Yes Med Devices Co Ltd Beijing 100152 Peoples R China

BACKGROUND: Monitoring fetal weight during pregnancy has a guiding role in prenatal care. OBJECTIVE: To establish a personalized fetal growth curve for effectively monitoring fetal growth during pregnancy. METHODS: (1) This study retrospectively analyzed the birth weight database of 2,474 singleton newborns delivered normally at term. The personalized fetal growth curve model was formed by combining the estimating birth weight of newborns with the proportional weight formula. (2) Multiple linear stepwise regression method was used to estimate the birth weight of newborns. RESULTS: (1) Delivery gestational age, weight at first visit, maternal height, pre-pregnancy body mass index, fetal sex, parity had significant effects on birth weight. Based on these parameters, the formula for calculating term optimal weight was obtained (R-2 = 22.8%, P < 0.001). (2) The personalized fetal growth curve was obtained according to the epidemiological factors input model of each pregnant woman. CONCLUSIONS: A model of personalized fetal growth curve can be established, and be used to evaluate fetal growth and development through estimated fetal weight monitoring.

关键词： Fetal weight growth charts personal health services

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Purines enrich root-associated Pseudomonas and improve wild soybean growth under salt stress

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NATURE COMMUNICATIONS 2024年第1期15卷 3520页

作者： Zheng, Yanfen Cao, xuwen Zhou, Yanan Ma, Siqi Wang, Youqiang Li, Zhe Zhao, Donglin Yang, Yanzhe zhang, Han Meng, Chen Xie, Zhihong Sui, Xiaona Xu, Kangwen Li, Yiqiang zhang, Cheng-Sheng Chinese Acad Agr Sci Tobacco Res Inst Marine Agr Res Ctr Qingdao 266101 Peoples R China Shandong Univ Inst Marine Sci & Technol Qingdao 266200 Peoples R China Shandong Agr Univ Coll Resources & Environm Natl Engn Lab Efficient Utilizat Soil & Fertilizer Tai An 271018 Peoples R China

The root-associated microbiota plays an important role in the response to environmental stress. However, the underlying mechanisms controlling the interaction between salt-stressed plants and microbiota are poorly understood. Here, by focusing on a salt-tolerant plant wild soybean (Glycine soja), we demonstrate that highly conserved microbes dominated by Pseudomonas are enriched in the root and rhizosphere microbiota of salt-stressed plant. Two corresponding Pseudomonas isolates are confirmed to enhance the salt tolerance of wild soybean. Shotgun metagenomic and metatranscriptomic sequencing reveal that motility-associated genes, mainly chemotaxis and flagellar assembly, are significantly enriched and expressed in salt-treated samples. We further find that roots of salt stressed plants secreted purines, especially xanthine, which induce motility of the Pseudomonas isolates. Moreover, exogenous application for xanthine to non-stressed plants results in Pseudomonas enrichment, reproducing the microbiota shift in salt-stressed root. Finally, Pseudomonas mutant analysis shows that the motility related gene cheW is required for chemotaxis toward xanthine and for enhancing plant salt tolerance. Our study proposes that wild soybean recruits beneficial Pseudomonas species by exudating key metabolites (i.e., purine) against salt stress.

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铁尾矿在电磁吸波建筑材料中的研究进展

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硅酸盐通报 2023年第3期42卷 925-938页

作者：宁旭文杨浪饶峰孙传琳方屹张凯铭福州大学紫金地质与矿业学院福州350116 福建省新能源金属绿色提取与高值利用重点实验室福州350116

铁尾矿是我国大宗工业固废的主要组成部分,库存量大,若不加以处理,将会造成环境污染风险和二次资源浪费,如何高效资源化利用铁尾矿是安全消纳大宗工业固废的重要保障。本文基于铁尾矿的基本性质和利用途径,以及电磁吸波原理,主要介绍了... 详细信息

铁尾矿是我国大宗工业固废的主要组成部分,库存量大,若不加以处理,将会造成环境污染风险和二次资源浪费,如何高效资源化利用铁尾矿是安全消纳大宗工业固废的重要保障。本文基于铁尾矿的基本性质和利用途径,以及电磁吸波原理,主要介绍了铁尾矿及其改性电磁吸波材料研究,以及铁尾矿在水泥基吸波混凝土和地质聚合物吸波胶凝材料中的研究,着重阐述了铁尾矿在水泥基混凝土中的吸波性能和机理研究进展,探讨了通过地质聚合反应制备铁尾矿基地质聚合物吸波混凝土的可行性及其性能,可为铁尾矿基地质聚合物在多功能建筑材料方面的应用提供借鉴,为提高铁尾矿固废资源的综合利用率,解决尾矿堆积、环境污染等问题提供解决思路。本文旨在总结铁尾矿在吸波建筑材料的研究进展并进一步推动地质聚合物吸波建筑材料的发展。

关键词：铁尾矿电磁吸波混凝土综合利用地质聚合反应反射率

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Recent Advance in 1-D Organic Semiconductors for Waveguide Applications

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MINI-REVIEWS IN ORGANIC CHEMISTRY 2019年第3期16卷 244-252页

作者： zhang, Rong Jin, Xiaobei Wen, xuwen Chen, Qi Int Ctr Bamboo & Rattan Beijing Peoples R China

One dimensional (1-D) micro-/nanostructures provide a good system to investigate the dependence of various properties on dimensionality and size reduction, especially in optoelectronic field. Organic conjugates including small molecules and polymers exhibit good optoelectronic properties and are apt to assemble into ordered nanostructures with well-defined shapes, tunable sizes and defect-free structures. In this review, we focus on recent progress of 1-D organic semiconductors for waveguide applications. Fabrication methods and materials of 1-D organic semiconductors are introduced. The morphology influence on the properties is also summarized.

关键词： Organic semiconductors conjugated polymers one-dimensional waveguide fabrication method electrospinning

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新生儿脾破裂保脾手术1例

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中华小儿外科杂志 2024年第11期45卷 1050-1051页

作者：赵伟赵绪稳齐晓敏张骜马林程红莲尚华胡博天津大学附属儿童医院(天津市儿童医院)新生儿外科天津300074

男, 日龄2 d, 因"腹胀、吃奶差24小时"来天津大学附属儿童医院新生儿内科。患儿系第2胎第2产, 胎龄38周+1, 于外院产科经阴道自然分娩, 具体产程家属不清楚, 出生体重为3.9 kg。否认宫内窘迫、胎膜早破, 否认羊水、脐带及胎... 详细信息

男, 日龄2 d, 因"腹胀、吃奶差24小时"来天津大学附属儿童医院新生儿内科。患儿系第2胎第2产, 胎龄38周+1, 于外院产科经阴道自然分娩, 具体产程家属不清楚, 出生体重为3.9 kg。否认宫内窘迫、胎膜早破, 否认羊水、脐带及胎盘异常。母体孕期无慢性病史、无用药史及无外伤史。出生Apgar评分不详。入院时精神反应差, 全身皮肤呈贫血貌, 腹胀, 无压痛, 四肢末梢凉, 股动脉搏动弱, 毛细血管充盈时间>4 s。实验室检查:静脉血气分析pH<6.75, 碱剩余测不出, 血红蛋白为22 g/L, 凝血酶原时间为20.3 s, 活化部分凝血酶原时间为74.2 s, 乳酸浓度为31.38 mmol/L。患儿入院后即刻液体复苏、呼吸机支持及输血治疗。急查床旁B型超声提示脾区缺血改变、腹腔大量积液(积血可能)。为进一步明确患儿病情, 完善腹部增强CT示考虑脾破裂可能, 腹盆腔大量积液(积血)。患儿诊断明确后转入本院新生儿外科进一步诊疗。

关键词：附属儿童医院宫内窘迫胎膜早破慢性病史新生儿外科四肢末梢用药史胎盘异常

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Efficient Removal and Recovery of Phosphorus from Industrial Wastewater in the Form of Vivianite

SSRN

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SSRN 2022年

作者： zhang, Yangzhong Qin, Jiafu Chen, Zhenguo Chen, Yongxing Zheng, xuwen Guo, Lu Wang, Xiaojun School of Environment and Energy South China University of Technology Guangzhou510006 China School of Environment South China Normal University Guangzhou510006 China

With the shortage of phosphorus resources, the concept of phosphorus recovery from wastewater is generally proposed. Recently, phosphorus recovery from wastewater in the form of vivianite has been widely reported, which could be used as a slow-release fertilizer as well as the production of lithium iron phosphate for Li-ion batteries. In this study, chemical precipitation thermodynamic modeling was applied to evaluate the effect of solution factors on vivianite crystallization with actual phosphorus containing industrial wastewater. The modeling results showed that the solution pH influences the concentration of diverse ions, and the initial Fe2+ concentration affects the formation area of vivianite. The saturation index (SI) of vivianite increased with the initial Fe2+ concentration and Fe:P molar ratio. pH 7.0, initial Fe2+ concentration 500 mg/L and Fe:P molar ratio 1.50 were the optimal conditions for phosphorus recovery. Mineral Liberation Analyzer (MLA) accurately determined the purity of vivianite was 24.13%, indicating the feasibility of recovering vivianite from industrial wastewater. In addition, the cost analysis showed that the cost of recovering phosphorus by the vivianite process was 0.925 USD/kg P, which can produce high-value vivianite products and realize "turn waste into treasure". © 2022, The Authors. All rights reserved.

关键词： Phosphorus

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