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  1. Article ; Online: Both nanoplastic and iron mineral types determine their heteroaggregation: Aggregation kinetics and interface process.

    Liu, Ning / Kong, Yu / Cao, Xuesong / Yue, Le / Wang, Zhenyu / Li, Xiaona

    Journal of hazardous materials

    2024  Volume 470, Page(s) 134192

    Abstract: Nanoplastics (NPs) inevitably interact with iron minerals (IMs) after being released into aquatic environments, changing their transport and fate. In this study, batch heteroaggregation kinetics of four types of NPs, i.e., polymethyl methacrylate (PMMA), ...

    Abstract Nanoplastics (NPs) inevitably interact with iron minerals (IMs) after being released into aquatic environments, changing their transport and fate. In this study, batch heteroaggregation kinetics of four types of NPs, i.e., polymethyl methacrylate (PMMA), polystyrene (PS-Bare), amino-polystyrene (PS-NH
    Language English
    Publishing date 2024-04-01
    Publishing country Netherlands
    Document type Journal Article
    ZDB-ID 1491302-1
    ISSN 1873-3336 ; 0304-3894
    ISSN (online) 1873-3336
    ISSN 0304-3894
    DOI 10.1016/j.jhazmat.2024.134192
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: WOOD: Wasserstein-Based Out-of-Distribution Detection.

    Wang, Yinan / Sun, Wenbo / Jin, Jionghua / Kong, Zhenyu / Yue, Xiaowei

    IEEE transactions on pattern analysis and machine intelligence

    2024  Volume 46, Issue 2, Page(s) 944–956

    Abstract: The training and testing data for deep-neural-network-based classifiers are usually assumed to be sampled from the same distribution. When part of the testing samples are drawn from a distribution that is sufficiently far away from that of the training ... ...

    Abstract The training and testing data for deep-neural-network-based classifiers are usually assumed to be sampled from the same distribution. When part of the testing samples are drawn from a distribution that is sufficiently far away from that of the training samples (a.k.a. out-of-distribution (OOD) samples), the trained neural network has a tendency to make high-confidence predictions for these OOD samples. Detection of the OOD samples is critical when training a neural network used for image classification, object detection, etc. It can enhance the classifier's robustness to irrelevant inputs, and improve the system's resilience and security under different forms of attacks. Detection of OOD samples has three main challenges: (i) the proposed OOD detection method should be compatible with various architectures of classifiers (e.g., DenseNet, ResNet) without significantly increasing the model complexity and requirements on computational resources; (ii) the OOD samples may come from multiple distributions, whose class labels are commonly unavailable; (iii) a score function needs to be defined to effectively separate OOD samples from in-distribution (InD) samples. To overcome these challenges, we propose a Wasserstein-based out-of-distribution detection (WOOD) method. The basic idea is to define a Wasserstein-based score that evaluates the dissimilarity between a test sample and the distribution of InD samples. An optimization problem is then formulated and solved based on the proposed score function. The statistical learning bound of the proposed method is investigated to guarantee that the loss value achieved by the empirical optimizer approximates the global optimum. The comparison study results demonstrate that the proposed WOOD consistently outperforms other existing OOD detection methods.
    Language English
    Publishing date 2024-01-08
    Publishing country United States
    Document type Journal Article
    ISSN 1939-3539
    ISSN (online) 1939-3539
    DOI 10.1109/TPAMI.2023.3328883
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: fosA7: a silent fosfomycin resistance gene in Salmonella?

    Wang, Jing / Li, Qiuchun / Jiang, Yue / Wang, Zhenyu / Jiao, Xinan

    The Lancet. Microbe

    2023  Volume 5, Issue 3, Page(s) e211

    MeSH term(s) Fosfomycin/pharmacology ; Fosfomycin/therapeutic use ; Salmonella/genetics ; Anti-Bacterial Agents/pharmacology ; Anti-Bacterial Agents/therapeutic use
    Chemical Substances Fosfomycin (2N81MY12TE) ; Anti-Bacterial Agents
    Language English
    Publishing date 2023-11-23
    Publishing country England
    Document type Letter ; Research Support, Non-U.S. Gov't ; Comment
    ISSN 2666-5247
    ISSN (online) 2666-5247
    DOI 10.1016/S2666-5247(23)00342-7
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  4. Article ; Online: A novel waveguide rod with acoustic black hole for acoustic emission signal enhancement and its performance.

    Fu, Ji / He, Tian / Liu, Zhenyu / Bao, Yue / Liu, Xiandong

    Ultrasonics

    2024  Volume 138, Page(s) 107260

    Abstract: As an essential auxiliary tool for acoustic emission (AE) detection, waveguide rods are widely used in testing situations where sensors cannot contact the specimens directly, such as high temperature, cryogenic, corrosion, radiation, etc. However, the AE ...

    Abstract As an essential auxiliary tool for acoustic emission (AE) detection, waveguide rods are widely used in testing situations where sensors cannot contact the specimens directly, such as high temperature, cryogenic, corrosion, radiation, etc. However, the AE signal attenuation in waveguide rod makes the risk of missing weak acoustic emission events in damage detection, which limits the application of waveguide rods. Therefore, in this work, a novel waveguide rod was presented based on acoustic black hole (ABH) theory to enhance the AE signal before reaching the sensor through the energy convergence effect of the ABH. Firstly, the geometric configuration of the waveguide rod with ABH was designed. The AE signal enhancement effect of the ABH waveguide rod was verified by comparing the amplitude of the AE signal for the traditional waveguide rod and the ABH waveguide rod by the finite element method. Secondly, the influence on the geometric parameters of the ABH waveguide rod for the AE signal enhancement effect was analyzed. The selection method of geometric parameters and the enhancement method of the AE signal with specific frequency bands were proposed to obtain expected AE signal enhancement results. Finally, the pencil-lead breaking experiments were implemented to verify the effectiveness of finite element method and the AE signal enhancement effect of ABH waveguide rod. The results show that the waveguide rod with ABH given in this paper has a significant AE signal enhancement effect and a good application prospect in structural acoustic emission health monitoring.
    Language English
    Publishing date 2024-02-09
    Publishing country Netherlands
    Document type Journal Article
    ZDB-ID 200839-7
    ISSN 1874-9968 ; 0041-624X
    ISSN (online) 1874-9968
    ISSN 0041-624X
    DOI 10.1016/j.ultras.2024.107260
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    In stock of ZB MED Cologne/Königswinter

    Zs.B 1133: Show issues Location:
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  5. Article ; Online: Crop-GPA: an integrated platform of crop gene-phenotype associations.

    Gao, Yujia / Zhou, Qian / Luo, Jiaxin / Xia, Chuan / Zhang, Youhua / Yue, Zhenyu

    NPJ systems biology and applications

    2024  Volume 10, Issue 1, Page(s) 15

    Abstract: With the increasing availability of large-scale biology data in crop plants, there is an urgent demand for a versatile platform that fully mines and utilizes the data for modern molecular breeding. We present Crop-GPA ( https://crop-gpa.aielab.net ), a ... ...

    Abstract With the increasing availability of large-scale biology data in crop plants, there is an urgent demand for a versatile platform that fully mines and utilizes the data for modern molecular breeding. We present Crop-GPA ( https://crop-gpa.aielab.net ), a comprehensive and functional open-source platform for crop gene-phenotype association data. The current Crop-GPA provides well-curated information on genes, phenotypes, and their associations (GPAs) to researchers through an intuitive interface, dynamic graphical visualizations, and efficient online tools. Two computational tools, GPA-BERT and GPA-GCN, are specifically developed and integrated into Crop-GPA, facilitating the automatic extraction of gene-phenotype associations from bio-crop literature and predicting unknown relations based on known associations. Through usage examples, we demonstrate how our platform enables the exploration of complex correlations between genes and phenotypes in crop plants. In summary, Crop-GPA serves as a valuable multi-functional resource, empowering the crop research community to gain deeper insights into the biological mechanisms of interest.
    MeSH term(s) Phenotype ; Crops, Agricultural/genetics ; Genes, Plant
    Language English
    Publishing date 2024-02-12
    Publishing country England
    Document type Journal Article
    ISSN 2056-7189
    ISSN (online) 2056-7189
    DOI 10.1038/s41540-024-00343-7
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: Correction to: Identification of a novel fusion gene, RARA::ANKRD34C, in acute promyelocytic leukemia.

    Chen, Yue / Pan, Mengge / Chen, Lanxin / Peng, Miaoxin / Liu, Zhenyu / Fang, Yiran / Du, Ying / Yang, Yonggong / Xu, Peipei

    Annals of hematology

    2024  Volume 103, Issue 5, Page(s) 1801

    Language English
    Publishing date 2024-03-26
    Publishing country Germany
    Document type Published Erratum
    ZDB-ID 1064950-5
    ISSN 1432-0584 ; 0939-5555 ; 0945-8077
    ISSN (online) 1432-0584
    ISSN 0939-5555 ; 0945-8077
    DOI 10.1007/s00277-024-05675-2
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    In stock of ZB MED Cologne/Königswinter

    Uh III Zs.181: Show issues Location:
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    bis Jg. 2021: Bestellungen von Artikeln über das Online-Bestellformular
    ab Jg. 2022: Lesesaal (EG)

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  7. Article: CeO

    Xu, Yinuo / Du, Hao / Wang, Chuanxi / Yue, Le / Chen, Feiran / Wang, Zhenyu

    Nanomaterials (Basel, Switzerland)

    2023  Volume 13, Issue 6

    Abstract: The direct uptake of extracellular DNA (eDNA) via transformation facilitates the dissemination of antibiotic resistance genes (ARGs) in the environment. ... ...

    Abstract The direct uptake of extracellular DNA (eDNA) via transformation facilitates the dissemination of antibiotic resistance genes (ARGs) in the environment. CeO
    Language English
    Publishing date 2023-03-08
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2662255-5
    ISSN 2079-4991
    ISSN 2079-4991
    DOI 10.3390/nano13060969
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  8. Article ; Online: PDDGCN: A Parasitic Disease-Drug Association Predictor Based on Multi-view Fusion Graph Convolutional Network.

    Wang, Xiaosong / Chen, Guojun / Hu, Hang / Zhang, Min / Rao, Yuan / Yue, Zhenyu

    Interdisciplinary sciences, computational life sciences

    2024  Volume 16, Issue 1, Page(s) 231–242

    Abstract: The precise identification of associations between diseases and drugs is paramount for comprehending the etiology and mechanisms underlying parasitic diseases. Computational approaches are highly effective in discovering and predicting disease-drug ... ...

    Abstract The precise identification of associations between diseases and drugs is paramount for comprehending the etiology and mechanisms underlying parasitic diseases. Computational approaches are highly effective in discovering and predicting disease-drug associations. However, the majority of these approaches primarily rely on link-based methodologies within distinct biomedical bipartite networks. In this study, we reorganized a fundamental dataset of parasitic disease-drug associations using the latest databases, and proposed a prediction model called PDDGCN, based on a multi-view graph convolutional network. To begin with, we fused similarity networks with binary networks to establish multi-view heterogeneous networks. We utilized neighborhood information aggregation layers to refine node embeddings within each view of the multi-view heterogeneous networks, leveraging inter- and intra-domain message passing to aggregate information from neighboring nodes. Subsequently, we integrated multiple embeddings from each view and fed them into the ultimate discriminator. The experimental results demonstrate that PDDGCN outperforms five state-of-the-art methods and four compared machine learning algorithms. Additionally, case studies have substantiated the effectiveness of PDDGCN in identifying associations between parasitic diseases and drugs. In summary, the PDDGCN model has the potential to facilitate the discovery of potential treatments for parasitic diseases and advance our comprehension of the etiology in this field. The source code is available at https://github.com/AhauBioinformatics/PDDGCN .
    MeSH term(s) Humans ; Parasitic Diseases ; Algorithms ; Databases, Factual ; Machine Learning ; Software
    Language English
    Publishing date 2024-01-31
    Publishing country Germany
    Document type Journal Article
    ZDB-ID 2493085-4
    ISSN 1867-1462 ; 1913-2751
    ISSN (online) 1867-1462
    ISSN 1913-2751
    DOI 10.1007/s12539-023-00600-z
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  9. Article ; Online: Mechanistic insight into the intensification of arsenic toxicity to rice (Oryza sativa L.) by nanoplastic: Phytohormone and glutathione metabolism modulation.

    Jiang, Yi / Chen, Xiaofei / Cao, Xuesong / Wang, Chuanxi / Yue, Le / Li, Xiaona / Wang, Zhenyu

    Journal of hazardous materials

    2024  Volume 469, Page(s) 134086

    Abstract: In this study, nanoplastic (NPs) at environmentally relevant concentration (0.001% w/w) had no effect on the growth of rice, while significantly elevated the phytotoxicity of As (III) by 9.4-22.8% based on the endpoints of biomass and photosynthesis. ... ...

    Abstract In this study, nanoplastic (NPs) at environmentally relevant concentration (0.001% w/w) had no effect on the growth of rice, while significantly elevated the phytotoxicity of As (III) by 9.4-22.8% based on the endpoints of biomass and photosynthesis. Mechanistically, NPs at 0.001% w/w enhanced As accumulation in the rice shoots and roots by 70.9% and 24.5%, respectively. Reasons of this finding can was that (1) the co-exposure with As and NPs significantly decreased abscisic acid content by 16.0% in rice, with subsequent increasing the expression of aquaporin related genes by 2.1- to 2.7-folds as compared with As alone treatment; (2) the presence of NPs significantly inhibited iron plaque formation on rice root surface by 22.5%. We firstly demonstrated that "Trojan horse effect" had no contribution to the enhancement of As accumulation by NPs exposure. Additionally, NPs disrupted the salicylic acid, jasmonic acid, and glutathione metabolism, which subsequently enhancing the oxidation (7.0%) and translocation (37.0%) of in planta As, and reducing arsenic detoxification pathways (e.g., antioxidative system (28.6-37.1%), As vacuolar sequestration (36.1%), and As efflux (18.7%)). Our findings reveal that the combined toxicity of NPs and traditional contaminations should be considered for realistic evaluations of NPs.
    MeSH term(s) Arsenic/toxicity ; Arsenic/metabolism ; Oryza/metabolism ; Plant Growth Regulators/metabolism ; Microplastics/metabolism ; Seedlings ; Glutathione/metabolism ; Plant Roots/metabolism
    Chemical Substances Arsenic (N712M78A8G) ; Plant Growth Regulators ; Microplastics ; Glutathione (GAN16C9B8O)
    Language English
    Publishing date 2024-03-20
    Publishing country Netherlands
    Document type Journal Article
    ZDB-ID 1491302-1
    ISSN 1873-3336 ; 0304-3894
    ISSN (online) 1873-3336
    ISSN 0304-3894
    DOI 10.1016/j.jhazmat.2024.134086
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  10. Article: First Report of Leaf Spot of

    Tian, Yue / Zhang, Yingying / Qiu, Chaodong / Liu, Zhenyu

    Plant disease

    2021  

    Abstract: ... Weigela ... ...

    Abstract Weigela florida
    Language English
    Publishing date 2021-03-23
    Publishing country United States
    Document type Journal Article
    ZDB-ID 754182-x
    ISSN 0191-2917
    ISSN 0191-2917
    DOI 10.1094/PDIS-07-20-1498-PDN
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    In stock of ZB MED Bonn / Germany

    Z 2043: Show issues

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