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  1. Conference proceedings ; Online: Data management

    Zhang, Xiaofei

    Cassava as an example

    2023  

    Keywords cassava ; data management ; data analysis
    Language English
    Publishing date 2023-02-08T13:05:14Z
    Publishing country fr
    Document type Conference proceedings ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  2. Conference proceedings ; Online: Cassava breeding scheme

    Zhang, Xiaofei

    2023  

    Keywords cassava ; genetic gain ; recurrent selection ; plant breeding ; evaluation ; phenotypes
    Language English
    Publishing date 2023-03-09T09:19:13Z
    Publishing country fr
    Document type Conference proceedings ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  3. Conference proceedings ; Online: Cassava breeding at CIAT

    Zhang, Xiaofei

    Accelerated cassava breeding to meet farmers’ needs

    2023  

    Keywords cassava ; plant breeding ; crop production
    Language English
    Publishing date 2023-03-09T10:20:54Z
    Publishing country fr
    Document type Conference proceedings ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  4. Conference proceedings ; Online: Cassava breeding at the Alliance I -- CBA I

    Zhang, Xiaofei

    2023  

    Keywords breeding ; smallholders ; gene duplication ; mejora ; pequeños agricultores ; duplicación de genes
    Language English
    Publishing date 2023-02-23T12:01:21Z
    Publishing country fr
    Document type Conference proceedings ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  5. Article ; Online: Enhanced Coprime Array Structure and DOA Estimation Algorithm for Coherent Sources.

    Han, Xiaolei / Zhang, Xiaofei

    Sensors (Basel, Switzerland)

    2024  Volume 24, Issue 1

    Abstract: This paper presents a new enhanced coprime array for direction of arrival (DOA) estimation. Coprime arrays are capable of estimating the DOA using coprime properties and outperforming uniform linear arrays. However, the associated algorithms are not ... ...

    Abstract This paper presents a new enhanced coprime array for direction of arrival (DOA) estimation. Coprime arrays are capable of estimating the DOA using coprime properties and outperforming uniform linear arrays. However, the associated algorithms are not directly applicable for estimating the DOA of coherent sources. To overcome this limitation, we propose an enhanced coprime array in this paper. By increasing the number of array sensors in the coprime array, it is feasible to enlarge the aperture of the array and these additional array sensors can be utilized to achieve spatial smoothing, thus enabling estimation of the DOA for coherent sources. Additionally, applying the spatial smoothing technique to the signal subspace, instead of the conventional spatial smoothing method, can further improve the ability to reduce noise interference and enhance the overall estimation result. Finally, DOA estimation is accomplished using the MUSIC algorithm. The simulation results demonstrate improved performance compared to traditional algorithms, confirming its feasibility.
    Language English
    Publishing date 2024-01-02
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2052857-7
    ISSN 1424-8220 ; 1424-8220
    ISSN (online) 1424-8220
    ISSN 1424-8220
    DOI 10.3390/s24010260
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: scDOT: enhancing single-cell RNA-Seq data annotation and uncovering novel cell types through multi-reference integration.

    Xiong, Yi-Xuan / Zhang, Xiao-Fei

    Briefings in bioinformatics

    2024  Volume 25, Issue 2

    Abstract: The proliferation of single-cell RNA-seq data has greatly enhanced our ability to comprehend the intricate nature of diverse tissues. However, accurately annotating cell types in such data, especially when handling multiple reference datasets and ... ...

    Abstract The proliferation of single-cell RNA-seq data has greatly enhanced our ability to comprehend the intricate nature of diverse tissues. However, accurately annotating cell types in such data, especially when handling multiple reference datasets and identifying novel cell types, remains a significant challenge. To address these issues, we introduce Single Cell annotation based on Distance metric learning and Optimal Transport (scDOT), an innovative cell-type annotation method adept at integrating multiple reference datasets and uncovering previously unseen cell types. scDOT introduces two key innovations. First, by incorporating distance metric learning and optimal transport, it presents a novel optimization framework. This framework effectively learns the predictive power of each reference dataset for new query data and simultaneously establishes a probabilistic mapping between cells in the query data and reference-defined cell types. Secondly, scDOT develops an interpretable scoring system based on the acquired probabilistic mapping, enabling the precise identification of previously unseen cell types within the data. To rigorously assess scDOT's capabilities, we systematically evaluate its performance using two diverse collections of benchmark datasets encompassing various tissues, sequencing technologies and diverse cell types. Our experimental results consistently affirm the superior performance of scDOT in cell-type annotation and the identification of previously unseen cell types. These advancements provide researchers with a potent tool for precise cell-type annotation, ultimately enriching our understanding of complex biological tissues.
    MeSH term(s) Humans ; Data Curation ; Single-Cell Gene Expression Analysis ; Benchmarking ; Learning ; Research Personnel
    Language English
    Publishing date 2024-03-03
    Publishing country England
    Document type Journal Article
    ZDB-ID 2068142-2
    ISSN 1477-4054 ; 1467-5463
    ISSN (online) 1477-4054
    ISSN 1467-5463
    DOI 10.1093/bib/bbae072
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    In stock of ZB MED Cologne/Königswinter

    Zs.A 6262: Show issues Location:
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  7. Article ; Online: Intraperitoneal hemorrhage after oophorocystectomy caused by coagulation factor XI deficiency: A case report and literature review.

    Xia, Yan / Zhang, Xiaofei

    Asian journal of surgery

    2024  Volume 47, Issue 5, Page(s) 2455–2456

    MeSH term(s) Humans ; Female ; Factor XI Deficiency/complications ; Hemoperitoneum/etiology ; Hemoperitoneum/surgery ; Adult ; Postoperative Hemorrhage/etiology
    Language English
    Publishing date 2024-01-27
    Publishing country Netherlands
    Document type Case Reports ; Letter ; Review
    ZDB-ID 1068461-x
    ISSN 0219-3108 ; 1015-9584
    ISSN (online) 0219-3108
    ISSN 1015-9584
    DOI 10.1016/j.asjsur.2024.01.109
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    In stock of ZB MED Cologne/Königswinter

    Zs.B 2831: Show issues Location:
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  8. Article ; Online: ENGEP: advancing spatial transcriptomics with accurate unmeasured gene expression prediction.

    Yang, Shi-Tong / Zhang, Xiao-Fei

    Genome biology

    2023  Volume 24, Issue 1, Page(s) 293

    Abstract: Imaging-based spatial transcriptomics techniques provide valuable spatial and gene expression information at single-cell resolution. However, their current capability is restricted to profiling a limited number of genes per sample, resulting in most of ... ...

    Abstract Imaging-based spatial transcriptomics techniques provide valuable spatial and gene expression information at single-cell resolution. However, their current capability is restricted to profiling a limited number of genes per sample, resulting in most of the transcriptome remaining unmeasured. To overcome this challenge, we develop ENGEP, an ensemble learning-based tool that predicts unmeasured gene expression in spatial transcriptomics data by using multiple single-cell RNA sequencing datasets as references. ENGEP outperforms current state-of-the-art tools and brings biological insight by accurately predicting unmeasured genes. ENGEP has exceptional efficiency in terms of runtime and memory usage, making it scalable for analyzing large datasets.
    MeSH term(s) Gene Expression Profiling ; Transcriptome ; Learning ; Single-Cell Analysis ; Sequence Analysis, RNA
    Language English
    Publishing date 2023-12-21
    Publishing country England
    Document type Journal Article
    ZDB-ID 2040529-7
    ISSN 1474-760X ; 1474-760X
    ISSN (online) 1474-760X
    ISSN 1474-760X
    DOI 10.1186/s13059-023-03139-w
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  9. Article ; Online: Control of ATG14 solubility and autophagy by MARCHF7/MARCH7-mediated ubiquitination.

    Shi, Xue / Zhang, Xiaofei

    Autophagy

    2023  Volume 20, Issue 3, Page(s) 699–700

    Abstract: Emerging research has unequivocally demonstrated the significance of post-translational modifications (PTMs) of proteins in orchestrating macroautophagy/autophagy regulation. Ubiquitination is a common PTM of proteins that regulates their stability, ... ...

    Abstract Emerging research has unequivocally demonstrated the significance of post-translational modifications (PTMs) of proteins in orchestrating macroautophagy/autophagy regulation. Ubiquitination is a common PTM of proteins that regulates their stability, activity, and localization, thus playing a crucial role in various cellular processes, including autophagy. In recent work, a ubiquitination-related study revealed that MARCHF7/MARCH7 promotes the mixed polyubiquitination of ATG14 at multiple sites, mainly through the linkages of K6, K11, and K63 ubiquitin chains. Consequently, mixed ubiquitination leads to substantial insoluble aggregation of ATG14/ATG14L/Barkor, reducing its interaction with STX17, and ultimately causing a decrease in autophagy flux. It is noteworthy that we have observed that this regulation may hold significant potential value for the autophagic degradation of protein aggregates, as the number of aggresome-like induced structures (ALISs) is markedly reduced in
    MeSH term(s) Autophagy/physiology ; Solubility ; Ubiquitination ; Ubiquitin/metabolism ; Protein Processing, Post-Translational
    Chemical Substances Ubiquitin
    Language English
    Publishing date 2023-11-09
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2454135-7
    ISSN 1554-8635 ; 1554-8627
    ISSN (online) 1554-8635
    ISSN 1554-8627
    DOI 10.1080/15548627.2023.2278414
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    In stock of ZB MED Cologne/Königswinter

    Zs.A 6741: Show issues Location:
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    bis Jg. 2021: Bestellungen von Artikeln über das Online-Bestellformular
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  10. Article ; Online: Retraction Note: MicroRNA-375 released from extracellular vesicles of bone marrow mesenchymal stem cells exerts anti-oncogenic effects against cervical cancer.

    Ding, Feng / Liu, Jinhua / Zhang, Xiaofei

    Stem cell research & therapy

    2024  Volume 15, Issue 1, Page(s) 51

    Language English
    Publishing date 2024-02-27
    Publishing country England
    Document type Retraction of Publication
    ZDB-ID 2548671-8
    ISSN 1757-6512 ; 1757-6512
    ISSN (online) 1757-6512
    ISSN 1757-6512
    DOI 10.1186/s13287-024-03666-8
    Database MEDical Literature Analysis and Retrieval System OnLINE

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