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  1. Artikel ; Online: Human infection with avian-origin H5N6 influenza a virus after exposure to slaughtered poultry.

    Li, Jun / Fang, Yezhen / Qiu, Xiaofeng / Yu, Xinfen / Cheng, Shi / Li, Na / Sun, Zhou / Ni, Zhimin / Wang, Haoqiu

    Emerging microbes & infections

    2022  Band 11, Heft 1, Seite(n) 807–810

    Abstract: Exposure to poultry in live poultry markets is strongly associated with human infection with avian influenza virus. To effectively prevent the transmission of viruses from live poultry to humans, people have been forced to change their living habits from ...

    Abstract Exposure to poultry in live poultry markets is strongly associated with human infection with avian influenza virus. To effectively prevent the transmission of viruses from live poultry to humans, people have been forced to change their living habits from purchasing live poultry for consumption to purchasing freshly slaughtered poultry after the permanent closure of live poultry markets in China. In this study, we reported a case of human infection by the H5N6 virus in Hangzhou after exposure to a freshly slaughtered chicken, defying the traditional hypothesis that human infection requires a history of exposure to live poultry and indicating a novel route of infection. Rapid genomic characterization of H5N6 influenza A variants from the patient and the associated environment suggested that these viral variants were of avian origin, belonged to clade 2.3.4.4b H5 and were adapting to the human host after infection. Comparative analysis of the local H5N6 genomes showed that viral contamination in the associated environment and the poultry market was complex. Considering this case of H5N6 infection, conducting surveillance for any possible new avian influenza virus reassortment spillover to humans or other animal species is critical, and awareness of the risk of exposure to possible viral variants from infected slaughtered poultry or the associated environment must be seriously improved.
    Mesh-Begriff(e) Animals ; Chickens ; China/epidemiology ; Humans ; Influenza A virus/genetics ; Influenza in Birds ; Influenza, Human ; Phylogeny ; Poultry ; Poultry Diseases
    Sprache Englisch
    Erscheinungsdatum 2022-03-02
    Erscheinungsland United States
    Dokumenttyp Case Reports ; Letter
    ZDB-ID 2681359-2
    ISSN 2222-1751 ; 2222-1751
    ISSN (online) 2222-1751
    ISSN 2222-1751
    DOI 10.1080/22221751.2022.2048971
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  2. Artikel ; Online: UCseek

    Ping Wang / Yue Shi / Jianye Zhang / Jianzhong Shou / Mingxin Zhang / Daojia Zou / Yuan Liang / Juan Li / Yezhen Tan / Mei Zhang / Xingang Bi / Liqun Zhou / Weimin Ci / Xuesong Li

    EBioMedicine, Vol 89, Iss , Pp 104437- (2023)

    ultrasensitive early detection and recurrence monitoring of urothelial carcinoma by shallow-depth genome-wide bisulfite sequencing of urinary sediment DNAResearch in context

    2023  

    Abstract: Summary: Background: Current methods for the detection and surveillance of urothelial carcinomas (UCs) are often invasive, costly, and not effective for low-grade, early-stage, and minimal residual disease (MRD) tumors. We aimed to develop and validate a ...

    Abstract Summary: Background: Current methods for the detection and surveillance of urothelial carcinomas (UCs) are often invasive, costly, and not effective for low-grade, early-stage, and minimal residual disease (MRD) tumors. We aimed to develop and validate a model from urine sediments to predict different grade and stage UCs with low cost and high accuracy. Methods: We collected 167 samples, including 90 tumors and 77 individuals without tumors, as a discovery cohort. We assessed copy number variations and methylation values for them and constructed a diagnostic classifier to detect UC, UCseek, by using an individual read-based method and support vector machine. The performance of UCseek was validated in an independent cohort derived from three hospitals (n = 206) and a relapse cohort (n = 42) for monitoring recurrence. Findings: We constructed UCseek, which could predict UCs with high sensitivity (92.7%), high specificity (90.7%), and high accuracy (91.7%) in the independent validation set. The accuracy of UCseek in low-grade and early-stage patients reached 91.8% and 94.3%, respectively. Notably, UCseek retained great performance at ultralow sequencing depths (0.3X-0.5X). It also demonstrated a powerful ability to monitor recurrence in a surveillance cohort compared with cystoscopy (90.91% vs. 59.09%). Interpretation: We optimized an improved approach named UCseek for the noninvasive diagnosis and monitoring of UCs in both low- and high-grade tumors and in early- and advanced-stage tumors, even at ultralow sequencing depths, which may reduce the burden of cystoscopy and blind second surgery. Funding: A full list of funding bodies that contributed to this study can be found in the Acknowledgments section.
    Schlagwörter Urothelial carcinoma ; Molecular diagnostics ; Tumor markers ; Diagnosis ; Relapse monitoring ; Machine learning ; Medicine ; R ; Medicine (General) ; R5-920
    Thema/Rubrik (Code) 616
    Sprache Englisch
    Erscheinungsdatum 2023-03-01T00:00:00Z
    Verlag Elsevier
    Dokumenttyp Artikel ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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  3. Artikel ; Online: Single-frequency fiber laser at 1627 nm based on a self-designed Er-doped hybridized glass fiber.

    Li, Jialong / Yang, Changsheng / Jiang, Kui / Zhao, Qilai / Mo, Shiman / Duan, Yezhen / Zhang, Yu / Li, Li / Zhou, Shifeng / Feng, Zhouming / Yang, Zhongmin / Xu, Shanhui

    Optics letters

    2023  Band 48, Heft 23, Seite(n) 6116–6119

    Abstract: Aiming at applications like expanding usable wave band of optical telecommunication and preparing Sr optical lattice clocks, a 1627 nm single-frequency fiber laser (SFFL) is demonstrated based on a 7-m-long self-designed Er-doped hybridized glass fiber ( ... ...

    Abstract Aiming at applications like expanding usable wave band of optical telecommunication and preparing Sr optical lattice clocks, a 1627 nm single-frequency fiber laser (SFFL) is demonstrated based on a 7-m-long self-designed Er-doped hybridized glass fiber (EDHF) and a linear cavity configuration with a loop mirror filter (LMF). By inserting a 10-m-long unpumped commercial Er-doped fiber as a dynamic Bragg grating into the LMF, a stable single-longitudinal-mode (SLM) laser with an output power of about 10 mW is obtained. The optical signal-to-noise ratio (OSNR) of SFFL is over 50 dB, and the linewidth is about 3.7 kHz. The measured relative intensity noise (RIN) is less than -140 dB/Hz at frequencies of over 0.5 MHz, and a power variation in 1 h is less than ±0.26%. To our best knowledge, it is the first demonstration of a SFFL operating at the U-band. This 1627 nm SFFL can provide advanced light source technology support for many cutting-edge applications.
    Sprache Englisch
    Erscheinungsdatum 2023-12-01
    Erscheinungsland United States
    Dokumenttyp Journal Article
    ISSN 1539-4794
    ISSN (online) 1539-4794
    DOI 10.1364/OL.506049
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  4. Artikel ; Online: UCseek: ultrasensitive early detection and recurrence monitoring of urothelial carcinoma by shallow-depth genome-wide bisulfite sequencing of urinary sediment DNA.

    Wang, Ping / Shi, Yue / Zhang, Jianye / Shou, Jianzhong / Zhang, Mingxin / Zou, Daojia / Liang, Yuan / Li, Juan / Tan, Yezhen / Zhang, Mei / Bi, Xingang / Zhou, Liqun / Ci, Weimin / Li, Xuesong

    EBioMedicine

    2023  Band 89, Seite(n) 104437

    Abstract: Background: Current methods for the detection and surveillance of urothelial carcinomas (UCs) are often invasive, costly, and not effective for low-grade, early-stage, and minimal residual disease (MRD) tumors. We aimed to develop and validate a model ... ...

    Abstract Background: Current methods for the detection and surveillance of urothelial carcinomas (UCs) are often invasive, costly, and not effective for low-grade, early-stage, and minimal residual disease (MRD) tumors. We aimed to develop and validate a model from urine sediments to predict different grade and stage UCs with low cost and high accuracy.
    Methods: We collected 167 samples, including 90 tumors and 77 individuals without tumors, as a discovery cohort. We assessed copy number variations and methylation values for them and constructed a diagnostic classifier to detect UC, UCseek, by using an individual read-based method and support vector machine. The performance of UCseek was validated in an independent cohort derived from three hospitals (n = 206) and a relapse cohort (n = 42) for monitoring recurrence.
    Findings: We constructed UCseek, which could predict UCs with high sensitivity (92.7%), high specificity (90.7%), and high accuracy (91.7%) in the independent validation set. The accuracy of UCseek in low-grade and early-stage patients reached 91.8% and 94.3%, respectively. Notably, UCseek retained great performance at ultralow sequencing depths (0.3X-0.5X). It also demonstrated a powerful ability to monitor recurrence in a surveillance cohort compared with cystoscopy (90.91% vs. 59.09%).
    Interpretation: We optimized an improved approach named UCseek for the noninvasive diagnosis and monitoring of UCs in both low- and high-grade tumors and in early- and advanced-stage tumors, even at ultralow sequencing depths, which may reduce the burden of cystoscopy and blind second surgery.
    Funding: A full list of funding bodies that contributed to this study can be found in the Acknowledgments section.
    Mesh-Begriff(e) Humans ; Urinary Bladder Neoplasms/genetics ; Carcinoma, Transitional Cell/diagnosis ; Carcinoma, Transitional Cell/genetics ; Carcinoma, Transitional Cell/pathology ; DNA Copy Number Variations ; Neoplasm Recurrence, Local ; DNA ; Biomarkers, Tumor/genetics
    Chemische Substanzen hydrogen sulfite (OJ9787WBLU) ; DNA (9007-49-2) ; Biomarkers, Tumor
    Sprache Englisch
    Erscheinungsdatum 2023-02-07
    Erscheinungsland Netherlands
    Dokumenttyp Journal Article
    ZDB-ID 2851331-9
    ISSN 2352-3964
    ISSN (online) 2352-3964
    DOI 10.1016/j.ebiom.2023.104437
    Datenquelle MEDical Literature Analysis and Retrieval System OnLINE

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  5. Artikel: [Analysis of variation and evolution of SARS-CoV-2 genome].

    Zhou, Yezhen / Zhang, Shihao / Chen, Jiayi / Wan, Chengsong / Zhao, Wei / Zhang, Bao

    Nan fang yi ke da xue xue bao = Journal of Southern Medical University

    2020  Band 40, Heft 2, Seite(n) 152–158

    Abstract: Objective: To analyze the evolution and variation of SARS-CoV-2 during the epidemic starting at the end of 2019.: Methods: We downloaded the full-length genome sequence of SARS-CoV-2 from the databases of GISAID and NCBI. Using the software for ... ...

    Abstract Objective: To analyze the evolution and variation of SARS-CoV-2 during the epidemic starting at the end of 2019.
    Methods: We downloaded the full-length genome sequence of SARS-CoV-2 from the databases of GISAID and NCBI. Using the software for bioinformatics including MEGA-X, BEAST, and TempEst, we constructed the genomic evolution tree, inferred the time evolution signal of the virus, calculated the tMRCA time of the virus and analyzed the selection pressure of the virus during evolution.
    Results: The phylogenetic tree showed that SARS-CoV-2 belonged to the Sarbecovirus subgenus of β Coronavirus genus together with bat coronavirus BetaCoV/bat/Yunnan/RaTG13/2013, bat-SL-CoVZC45, bat-SL-CoVZXC21 and SARS-CoV. The genomic sequences of SARS-CoV-2 isolated from the ongoing epidemic showed a weak time evolution signal with an average tMRCA time of 73 days (95% CI: 38.9-119.3 days). No positive time evolution signal was found between SARS-CoV-2 and BetaCoV/bat/Yunnan/RaTG13/2013, but the former virus had a strong positive temporal evolution relationship with bat-SL-CoVZC45 and SARS-CoV. The major cause for mutations of SARS-CoV-2 was the pressure of purification selection during the epidemic.
    Conclusions: SARS-CoV-2 may have emerged as early as November, 2019, originating most likely from bat-associated coronavirus. This finding may provide evidence for tracing the sources and evolution of the virus.
    Mesh-Begriff(e) Animals ; Betacoronavirus/genetics ; Biological Evolution ; COVID-19 ; China ; Chiroptera/virology ; Coronavirus/genetics ; Coronavirus Infections/genetics ; Coronavirus Infections/virology ; Genome, Viral ; Pandemics ; Phylogeny ; Pneumonia, Viral/genetics ; Pneumonia, Viral/virology ; SARS-CoV-2 ; Whole Genome Sequencing
    Schlagwörter covid19
    Sprache Chinesisch
    Erscheinungsdatum 2020-05-05
    Erscheinungsland China
    Dokumenttyp Journal Article
    ZDB-ID 2250951-3
    ISSN 1673-4254
    ISSN 1673-4254
    DOI 10.12122/j.issn.1673-4254.2020.02.02
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  6. Artikel ; Online: Single-cell atlases link macrophages and CD8

    Liang, Yuan / Tan, Yezhen / Guan, Bao / Guo, Bin / Xia, Mancheng / Li, Juan / Shi, Yue / Yu, Zihui / Zhang, Qi / Liu, Di / Yang, Xiaopeng / Hao, Junfeng / Gong, Yanqing / Shakeel, Muhammad / Zhou, Liqun / Ci, Weimin / Li, Xuesong

    Theranostics

    2022  Band 12, Heft 18, Seite(n) 7745–7759

    Abstract: Rationale: ...

    Abstract Rationale:
    Mesh-Begriff(e) Humans ; Carcinoma, Transitional Cell ; Urinary Bladder Neoplasms/drug therapy ; Immunotherapy ; Immunologic Factors ; CD8-Positive T-Lymphocytes ; Disease Progression ; Macrophages ; Immune Checkpoint Inhibitors/pharmacology ; Immune Checkpoint Inhibitors/therapeutic use ; Immunosuppressive Agents ; Tumor Microenvironment
    Chemische Substanzen Immunologic Factors ; Immune Checkpoint Inhibitors ; Immunosuppressive Agents
    Sprache Englisch
    Erscheinungsdatum 2022-11-14
    Erscheinungsland Australia
    Dokumenttyp Journal Article
    ZDB-ID 2592097-2
    ISSN 1838-7640 ; 1838-7640
    ISSN (online) 1838-7640
    ISSN 1838-7640
    DOI 10.7150/thno.77281
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  7. Artikel ; Online: Experimental study on bone defect repair by BMSCs combined with a light-sensitive material: g-C

    Liang, Jie / Li, Wenhua / Zhuang, Ning / Wen, Sini / Huang, Shijia / Lu, Weizhi / Zhou, Yezhen / Liao, Gaozu / Zhang, Bao / Liu, Chenglong

    Journal of biomaterials science. Polymer edition

    2020  Band 32, Heft 2, Seite(n) 248–265

    Abstract: Bone marrow mesenchymal stem cells (BMSCs), as seed cells, have played an important role in bone defect repair. However, efficiently amplifying and inducing ... ...

    Abstract Bone marrow mesenchymal stem cells (BMSCs), as seed cells, have played an important role in bone defect repair. However, efficiently amplifying and inducing BMSCs
    Mesh-Begriff(e) Animals ; Bone Marrow Cells ; Cell Differentiation ; Cells, Cultured ; Graphite ; Mesenchymal Stem Cells ; Osteogenesis
    Chemische Substanzen graphene oxide ; Graphite (7782-42-5)
    Sprache Englisch
    Erscheinungsdatum 2020-10-08
    Erscheinungsland England
    Dokumenttyp Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 1014190-x
    ISSN 1568-5624 ; 1568-5616 ; 0920-5063
    ISSN (online) 1568-5624 ; 1568-5616
    ISSN 0920-5063
    DOI 10.1080/09205063.2020.1827923
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  8. Buch ; Online: Energy-Based Open-World Uncertainty Modeling for Confidence Calibration

    Wang, Yezhen / Li, Bo / Che, Tong / Zhou, Kaiyang / Liu, Ziwei / Li, Dongsheng

    2021  

    Abstract: Confidence calibration is of great importance to the reliability of decisions made by machine learning systems. However, discriminative classifiers based on deep neural networks are often criticized for producing overconfident predictions that fail to ... ...

    Abstract Confidence calibration is of great importance to the reliability of decisions made by machine learning systems. However, discriminative classifiers based on deep neural networks are often criticized for producing overconfident predictions that fail to reflect the true correctness likelihood of classification accuracy. We argue that such an inability to model uncertainty is mainly caused by the closed-world nature in softmax: a model trained by the cross-entropy loss will be forced to classify input into one of $K$ pre-defined categories with high probability. To address this problem, we for the first time propose a novel $K$+1-way softmax formulation, which incorporates the modeling of open-world uncertainty as the extra dimension. To unify the learning of the original $K$-way classification task and the extra dimension that models uncertainty, we propose a novel energy-based objective function, and moreover, theoretically prove that optimizing such an objective essentially forces the extra dimension to capture the marginal data distribution. Extensive experiments show that our approach, Energy-based Open-World Softmax (EOW-Softmax), is superior to existing state-of-the-art methods in improving confidence calibration.

    Comment: ICCV 2021 (Poster)
    Schlagwörter Computer Science - Machine Learning ; Computer Science - Computer Vision and Pattern Recognition
    Thema/Rubrik (Code) 006
    Erscheinungsdatum 2021-07-27
    Erscheinungsland us
    Dokumenttyp Buch ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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  9. Artikel: Enterovirus A71 utilizes host cell lipid β-oxidation to promote its replication.

    Yang, Xiuwen / Chen, Jiayi / Lu, Zixin / Huang, Shan / Zhang, Shihao / Cai, Jintai / Zhou, Yezhen / Cao, Guanhua / Yu, Jianhai / Qin, Zhiran / Zhao, Wei / Zhang, Bao / Zhu, Li

    Frontiers in microbiology

    2022  Band 13, Seite(n) 961942

    Abstract: Enterovirus A71 (EV-A71) is a major pathogen that causes severe and fatal cases of hand-foot-and-mouth disease (HFMD), which is an infectious disease that endangers children's health. However, the pathogenic mechanisms underlying these severe clinical ... ...

    Abstract Enterovirus A71 (EV-A71) is a major pathogen that causes severe and fatal cases of hand-foot-and-mouth disease (HFMD), which is an infectious disease that endangers children's health. However, the pathogenic mechanisms underlying these severe clinical and pathological features remain incompletely understood. Metabolism and stress are known to play critical roles in multiple stages of the replication of viruses. Lipid metabolism and ER stress is an important characterization post viral infection. EV-A71 infection alters the perturbations of intracellular lipid homeostasis and induces ER stress. The characterizations induced by viral infections are essential for optimal virus replication and may be potential antiviral targets. In this study, we found that the addition of the chemical drug of ER stress, PKR IN, an inhibitor, or Tunicamycin, an activator, could significantly reduce viral replication with the decrease of lipid. The replication of viruses was reduced by Chemical reagent TOFA, an inhibitor of acetyl-CoA carboxylase (ACC) or C75, an inhibitor of fatty acid synthase (FASN), while enhanced by oleic acid (OA), which is a kind of exogenous supplement of triacylglycerol. The pharmacochemical reagent of carnitine palmitoyltransferase 1 (CPT1) called Etomoxir could knock down CPT1 to induce EV-A71 replication to decrease. This suggests that lipid, rather than ER stress, is the main factor affecting EV-A71 replication. In conclusion, this study revealed that it is the β-oxidation of lipid that plays a core role, not ER stress, which is only a concomitant change without restrictive effect, on virus replication.
    Sprache Englisch
    Erscheinungsdatum 2022-09-28
    Erscheinungsland Switzerland
    Dokumenttyp Journal Article
    ZDB-ID 2587354-4
    ISSN 1664-302X
    ISSN 1664-302X
    DOI 10.3389/fmicb.2022.961942
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  10. Artikel ; Online: Severe Acute Respiratory Syndrome Coronavirus 2 ORF8 Protein Inhibits Type I Interferon Production by Targeting HSP90B1 Signaling.

    Chen, Jiayi / Lu, Zixin / Yang, Xiuwen / Zhou, Yezhen / Gao, Jing / Zhang, Shihao / Huang, Shan / Cai, Jintai / Yu, Jianhai / Zhao, Wei / Zhang, Bao

    Frontiers in cellular and infection microbiology

    2022  Band 12, Seite(n) 899546

    Abstract: Coronavirus disease 2019 (COVID-19), caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), is a global pandemic that has currently infected over 430 million individuals worldwide. With the variant strains of SARS-CoV-2 emerging, a ... ...

    Abstract Coronavirus disease 2019 (COVID-19), caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), is a global pandemic that has currently infected over 430 million individuals worldwide. With the variant strains of SARS-CoV-2 emerging, a region of high mutation rates in ORF8 was identified during the early pandemic, which resulted in a mutation from leucine (L) to serine (S) at amino acid 84. A typical feature of ORF8 is the immune evasion by suppressing interferon response; however, the mechanisms by which the two variants of ORF8 antagonize the type I interferon (IFN-I) pathway have not yet been clearly investigated. Here, we reported that SARS-CoV-2 ORF8L and ORF8S with no difference inhibit the production of IFN-β, MDA5, RIG-I, ISG15, ISG56, IRF3, and other IFN-related genes induced by poly(I:C). In addition, both ORF8L and ORF8S proteins were found to suppress the nuclear translocation of IRF3. Mechanistically, the SARS-CoV-2 ORF8 protein interacts with HSP90B1, which was later investigated to induce the production of IFN-β and IRF3. Taken together, these results indicate that SARS-CoV-2 ORF8 antagonizes the RIG-I/MDA-5 signaling pathway by targeting HSP90B1, which subsequently exhibits an inhibitory effect on the production of IFN-I. These functions appeared not to be influenced by the genotypes of ORF8L and ORF8S. Our study provides an explanation for the antiviral immune suppression of SARS-CoV-2 and suggests implications for the pathogenic mechanism and treatment of COVID-19.
    Mesh-Begriff(e) COVID-19/virology ; Humans ; Immune Evasion ; Interferon Type I/metabolism ; Interferon-beta/genetics ; Membrane Glycoproteins/metabolism ; SARS-CoV-2 ; Signal Transduction ; Viral Proteins/metabolism
    Chemische Substanzen Interferon Type I ; Membrane Glycoproteins ; ORF8 protein, SARS-CoV-2 ; Viral Proteins ; endoplasmin ; Interferon-beta (77238-31-4)
    Sprache Englisch
    Erscheinungsdatum 2022-05-23
    Erscheinungsland Switzerland
    Dokumenttyp Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2619676-1
    ISSN 2235-2988 ; 2235-2988
    ISSN (online) 2235-2988
    ISSN 2235-2988
    DOI 10.3389/fcimb.2022.899546
    Datenquelle MEDical Literature Analysis and Retrieval System OnLINE

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