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  1. Article ; Online: Entropy-Optimized Deep Weighted Product Quantization for Image Retrieval.

    Gu, Lingchen / Liu, Ju / Liu, Xiaoxi / Wan, Wenbo / Sun, Jiande

    IEEE transactions on image processing : a publication of the IEEE Signal Processing Society

    2024  Volume 33, Page(s) 1162–1174

    Abstract: Hashing and quantization have greatly succeeded by benefiting from deep learning for large-scale image retrieval. Recently, deep product quantization methods have attracted wide attention. However, representation capability of codewords needs to be ... ...

    Abstract Hashing and quantization have greatly succeeded by benefiting from deep learning for large-scale image retrieval. Recently, deep product quantization methods have attracted wide attention. However, representation capability of codewords needs to be further improved. Moreover, since the number of codewords in the codebook depends on experience, representation capability of codewords is usually imbalanced, which leads to redundancy or insufficiency of codewords and reduces retrieval performance. Therefore, in this paper, we propose a novel deep product quantization method, named Entropy Optimized deep Weighted Product Quantization (EOWPQ), which not only encodes samples into the weighted codewords in a new flexible manner but also balances the codeword assignment, improving while balancing representation capability of codewords. Specifically, we encode samples using the linear weighted sum of codewords instead of a single codeword as traditionally. Meanwhile, we establish the linear relationship between the weighted codewords and semantic labels, which effectively maintains semantic information of codewords. Moreover, in order to balance the codeword assignment, that is, avoiding some codewords representing most samples or some codewords representing very few samples, we maximize the entropy of the coding probability distribution and obtain the optimal coding probability distribution of samples by utilizing optimal transport theory, which achieves the optimal assignment of codewords and balances representation capability of codewords. The experimental results on three benchmark datasets show that EOWPQ can achieve better retrieval performance and also show the improvement of representation capability of codewords and the balance of codeword assignment.
    Language English
    Publishing date 2024-02-09
    Publishing country United States
    Document type Journal Article
    ISSN 1941-0042
    ISSN (online) 1941-0042
    DOI 10.1109/TIP.2024.3359066
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article: Identification of Hub Genes Associated with Gastric Cancer via Bioinformatics Analysis and Validation Studies.

    Zhao, Ting / Chen, Zihao / Liu, Wenbo / Ju, Hongping / Li, Fang

    International journal of general medicine

    2023  Volume 16, Page(s) 4835–4848

    Abstract: Introduction: Hub genes related to the development of gastric cancer (GC) were identified based on bioinformatics methods. This study aimed to identify GC hub genes, explore the expression of genes in GC and their correlation with prognosis, so as to ... ...

    Abstract Introduction: Hub genes related to the development of gastric cancer (GC) were identified based on bioinformatics methods. This study aimed to identify GC hub genes, explore the expression of genes in GC and their correlation with prognosis, so as to provide strategies for GC diagnosis and targeted therapy.
    Methods: Two messenger RNA (mRNA) microarray datasets were downloaded from GEO database. These data were combined with TCGA database to obtain common DEGs between GC tissues and normal tissues. GO and KEGG pathway enrichment analysis was performed. Visualized PPI network analysis was performed by Cytoscape to further identify hub genes. GEPIA database was used to evaluate the prognostic value of hub genes. The online software Ualcan was applied to analyze the expression of the prognosis-related genes in cancer tissues and normal tissues from different perspectives of primary GC, TNM stage, nodal metastasis status and tumor grade. Immunohistochemical staining of GC tissues and normal tissues was performed to evaluate the expression of signature genes in GC.
    Results: Eighty-four common differentially expressed genes (DEGs) in GC were identified. These genes were closely related to the P13K-Akt signal pathway and other signaling pathways. Ten hub genes were identified. Collagen type I alpha 1 (COL1A1) and collagen type IV alpha 1 (COL4A1) were significantly associated with poor prognosis of GC and were all positively correlated with T stage, distant metastasis, and TNM stage of GC. Immunohistochemistry revealed that the expression of these 2 genes was upregulated in GC tissues. These 2 genes expression was negatively related with 5-year survival rate of GC patients.
    Conclusion: Ten highly expressed hub genes in GC tissue were mined by bioinformatics method. COL1A1 and COL4A1 were significantly associated with the prognosis of GC. This study provided a theoretical basis for the pathogenesis, clinical diagnosis and therapeutic targets of GC.
    Language English
    Publishing date 2023-10-26
    Publishing country New Zealand
    Document type Journal Article
    ZDB-ID 2452220-X
    ISSN 1178-7074
    ISSN 1178-7074
    DOI 10.2147/IJGM.S432284
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article: CTAB Enhanced Room-Temperature Detection of NO

    Li, Wenbo / Li, Hao / Qian, Rong / Zhuo, Shangjun / Ju, Pengfei / Chen, Qiao

    Nanomaterials (Basel, Switzerland)

    2022  Volume 12, Issue 8

    Abstract: ... A new ... ...

    Abstract A new NO
    Language English
    Publishing date 2022-04-11
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2662255-5
    ISSN 2079-4991
    ISSN 2079-4991
    DOI 10.3390/nano12081300
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Genome-wide identification and characterization of ABA receptor pyrabactin resistance 1-like protein (PYL) family in oat.

    Mi, Wenbo / Liu, Kaiqiang / Liang, Guoling / Jia, Zhifeng / Ma, Xiang / Ju, Zeliang / Liu, Wenhui

    PeerJ

    2023  Volume 11, Page(s) e16181

    Abstract: Abscisic acid (ABA) is a phytohormone that plays an important role in plant growth and development. Meanwhile, ABA also plays a key role in the plant response to abiotic stressors such as drought and high salinity. The pyrabactin resistance 1-like (PYR/ ... ...

    Abstract Abscisic acid (ABA) is a phytohormone that plays an important role in plant growth and development. Meanwhile, ABA also plays a key role in the plant response to abiotic stressors such as drought and high salinity. The pyrabactin resistance 1-like (PYR/PYL) protein family of ABA receptors is involved in the initial step of ABA signal transduction. However, no systematic studies of the PYL family in "
    MeSH term(s) Abscisic Acid/metabolism ; Avena/genetics ; Arabidopsis Proteins/genetics ; Arabidopsis/genetics ; Phylogeny ; Carrier Proteins/genetics
    Chemical Substances Abscisic Acid (72S9A8J5GW) ; Arabidopsis Proteins ; pyrabactin ; Carrier Proteins
    Language English
    Publishing date 2023-10-02
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2703241-3
    ISSN 2167-8359 ; 2167-8359
    ISSN (online) 2167-8359
    ISSN 2167-8359
    DOI 10.7717/peerj.16181
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Genome-wide identification and characterization of ABA receptor pyrabactin resistance 1-like protein (PYL) family in oat

    Wenbo Mi / Kaiqiang Liu / Guoling Liang / Zhifeng Jia / Xiang Ma / Zeliang Ju / Wenhui Liu

    PeerJ, Vol 11, p e

    2023  Volume 16181

    Abstract: Abscisic acid (ABA) is a phytohormone that plays an important role in plant growth and development. Meanwhile, ABA also plays a key role in the plant response to abiotic stressors such as drought and high salinity. The pyrabactin resistance 1-like (PYR/ ... ...

    Abstract Abscisic acid (ABA) is a phytohormone that plays an important role in plant growth and development. Meanwhile, ABA also plays a key role in the plant response to abiotic stressors such as drought and high salinity. The pyrabactin resistance 1-like (PYR/PYL) protein family of ABA receptors is involved in the initial step of ABA signal transduction. However, no systematic studies of the PYL family in “Avena sativa, a genus Avena in the grass family Poaceae,” have been conducted to date. Thus, in this study, we performed a genome-wide screening to identify PYL genes in oat and characterized their responses to drought stress. A total of 12 AsPYL genes distributed on nine chromosomes were identified. The phylogenetic analysis divided these AsPYLs into three subfamilies, based on structural and functional similarities. Gene and motif structure analysis of AsPYLs revealed that members of each subfamily share similar gene and motif structure. Segmental duplication appears to be the driving force for the expansion of PYLs, Furthermore, stress-responsive AsPYLs were detected through RNA-seq analysis. The qRT-PCR analysis of 10 AsPYL genes under drought, salt, and ABA stress revealed that AsPYL genes play an important role in stress response. These data provide a reference for further studies on the oat PYL gene family and its function.
    Keywords Avena sativa L ; PYL family ; Genome-wide ; Expression patterns ; Medicine ; R ; Biology (General) ; QH301-705.5
    Subject code 572
    Language English
    Publishing date 2023-10-01T00:00:00Z
    Publisher PeerJ Inc.
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  6. Article: Soil microbial community are more sensitive to ecological regions than cropping systems in alpine annual grassland of the Qinghai-Tibet Plateau.

    Luo, Feng / Mi, Wenbo / Liu, Wenhui / Ma, Xiang / Liu, KaiQiang / Ju, Zeliang / Li, Wen

    Frontiers in microbiology

    2024  Volume 15, Page(s) 1345235

    Abstract: Introduction: Modern agriculture emphasizes the design of cropping systems using ecological function and production services to achieve sustainability. The functional characteristics of plants (grasses vs. legumes) affect changes in soil microbial ... ...

    Abstract Introduction: Modern agriculture emphasizes the design of cropping systems using ecological function and production services to achieve sustainability. The functional characteristics of plants (grasses vs. legumes) affect changes in soil microbial communities that drive agroecosystem services. Information on the relationship between legume-grass mixtures and soil microorganisms in different ecological zones guides decision-making toward eco-friendly and sustainable forage production. However, it is still poorly understood how cropping patterns affect soil microbial diversity in alpine grasslands and whether this effect varies with altitude.
    Methods: To fill this gap in knowledge, we conducted a field study to investigate the effects of growing oats (
    Results: We found that the fungal and bacterial community structure differed among the cropping patterns, particularly the community structure of the legume mixed cropping pattern was very different from that of monocropped oats. In all ecological zones, mixed cropping significantly (
    Discussion: Our study highlights the variation in soil microbial communities among different in alpine ecological regions and their resilience to cropping systems. Our results also underscore that mixed legume planting is a sustainable and effective forage management practice for the Tibetan Plateau.
    Language English
    Publishing date 2024-03-15
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2587354-4
    ISSN 1664-302X
    ISSN 1664-302X
    DOI 10.3389/fmicb.2024.1345235
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article ; Online: Deep Learning Features and Metabolic Tumor Volume Based on PET/CT to Construct Risk Stratification in Non-small Cell Lung Cancer.

    Ju, Linjun / Li, Wenbo / Zuo, Rui / Chen, Zheng / Li, Yue / Feng, Yuyue / Xiang, Yuting / Pang, Hua

    Academic radiology

    2024  

    Abstract: Rationale and objectives: To build a risk stratification by incorporating PET/CT-based deep learning features and whole-body metabolic tumor volume (MTV: Materials and methods: The study enrolled 590 patients with NSCLC (413 for training and 177 for ... ...

    Abstract Rationale and objectives: To build a risk stratification by incorporating PET/CT-based deep learning features and whole-body metabolic tumor volume (MTV
    Materials and methods: The study enrolled 590 patients with NSCLC (413 for training and 177 for testing). Features were extracted by employing a convolutional neural network. The combined risk stratification (CRS) was constructed by the selected features and MTV
    Results: Multivariate analysis revealed that CRS was an independent predictor of OS and PFS. C-indexes of the CRS demonstrated statistically significant increases in comparison to TNM staging, excepting predicting OS in the testing set (for OS, C-index=0.71 vs. 0.691 in the training set and 0.73 vs. 0.736 in the testing set; for PFS, C-index=0.702 vs. 0.686 in the training set and 0.732 vs. 0.71 in the testing set). The nomogram that combined CRS with TNM staging demonstrated the most superior model performance in the training and testing sets (C-index=0.741 and 0.771).
    Conclusion: The addition of CRS improves TNM staging's predictive power and shows potential as a useful tool to support physicians in making treatment decisions.
    Language English
    Publishing date 2024-05-12
    Publishing country United States
    Document type Journal Article
    ZDB-ID 1355509-1
    ISSN 1878-4046 ; 1076-6332
    ISSN (online) 1878-4046
    ISSN 1076-6332
    DOI 10.1016/j.acra.2024.04.036
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  8. Article ; Online: Dimensional Design for Surface-Enhanced Raman Spectroscopy.

    Long, Li / Ju, Wenbo / Yang, Hai-Yao / Li, Zhiyuan

    ACS materials Au

    2022  Volume 2, Issue 5, Page(s) 552–575

    Abstract: Surface-enhanced Raman spectroscopy (SERS) is a vibrational spectroscopy technique that enables specific identification of target analytes with sensitivity down to the single-molecule level by harnessing metal nanoparticles and nanostructures. Excitation ...

    Abstract Surface-enhanced Raman spectroscopy (SERS) is a vibrational spectroscopy technique that enables specific identification of target analytes with sensitivity down to the single-molecule level by harnessing metal nanoparticles and nanostructures. Excitation of localized surface plasmon resonance of a nanostructured surface and the associated huge local electric field enhancement lie at the heart of SERS, and things will become better if strong chemical enhancement is also available simultaneously. Thus, the precise control of surface characteristics of enhancing substrates plays a key role in broadening the scope of SERS for scientific purposes and developing SERS into a routine analytical tool. In this review, the development of SERS substrates is outlined with some milestones in the nearly half-century history of SERS. In particular, these substrates are classified into zero-dimensional, one-dimensional, two-dimensional, and three-dimensional substrates according to their geometric dimension. We show that, in each category of SERS substrates, design upon the geometric and composite configuration can be made to achieve an optimized enhancement factor for the Raman signal. We also show that the temporal dimension can be incorporated into SERS by applying femtosecond pulse laser technology, so that the SERS technique can be used not only to identify the chemical structure of molecules but also to uncover the ultrafast dynamics of molecular structural changes. By adopting SERS substrates with the power of four-dimensional spatiotemporal control and design, the ultimate goal of probing the single-molecule chemical structural changes in the femtosecond time scale, watching the chemical reactions in four dimensions, and visualizing the elementary reaction steps in chemistry might be realized in the near future.
    Language English
    Publishing date 2022-05-10
    Publishing country United States
    Document type Journal Article ; Review
    ISSN 2694-2461
    ISSN (online) 2694-2461
    DOI 10.1021/acsmaterialsau.2c00005
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  9. Article ; Online: In Situ Monitoring of the Surface Evolution of a Silver Electrode from Polycrystalline to Well-Defined Structures.

    Li, Hongjiao / Liang, Yunchang / Ju, Wenbo / Schneider, Oliver / Stimming, Ulrich

    Langmuir : the ACS journal of surfaces and colloids

    2022  Volume 38, Issue 48, Page(s) 14981–14987

    Abstract: Capturing the surface-structural dynamics of metal electrocatalysts under certain electrochemical environments is intriguingly desired for understanding the behavior of various metal-based electrocatalysts. However, in situ monitoring of the evolution of ...

    Abstract Capturing the surface-structural dynamics of metal electrocatalysts under certain electrochemical environments is intriguingly desired for understanding the behavior of various metal-based electrocatalysts. However, in situ monitoring of the evolution of a polycrystalline metal surface at the interface of electrode-electrolyte solutions at negative/positive potentials with high-resolution scanning tunneling microscopy (STM) is seldom. Here, we use electrochemical STM (EC-STM) for in situ monitoring of the surface evolution process of a silver electrode in both an aqueous sodium hydroxide solution and an ionic liquid of 1-methyl-1-octylpyrrolidinium bis(trifluoromethylsulfonyl) amide driven by negative potentials. We found silver underwent a surface change from a polycrystalline structure to a well-defined surface arrangement in both electrolytes. In NaOH aqueous solution, the silver surface transferred in several minutes at a turning-point potential where hydrogen adsorbed and formed mainly (111) and (100) pits. Controversially, the surface evolution in the ionic liquid was much slower than that in the aqueous solution, and cation adsorption was observed in a wide potential range. The surface evolution of silver is proposed to be linked to the surface adsorbates as well as the formation of their complexes with undercoordinated silver atoms. The results also show that cathodic annealing of polycrystalline silver is a cheap, easy, and reliable way to obtain quasi-ordered crystal surfaces.
    Language English
    Publishing date 2022-11-17
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2005937-1
    ISSN 1520-5827 ; 0743-7463
    ISSN (online) 1520-5827
    ISSN 0743-7463
    DOI 10.1021/acs.langmuir.2c02748
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  10. Article ; Online: Intense and Superflat White Laser with 700-nm 3-dB Bandwidth and 1-mJ Pulse Energy Enabling Single-Shot Subpicosecond Pulse Laser Spectroscopy

    Lihong Hong / Haiyao Yang / Liqiang Liu / Mingzhou Li / Yuanyuan Liu / Baoqin Chen / Huakang Yu / Wenbo Ju / Zhi-Yuan Li

    Research, Vol

    2023  Volume 6

    Abstract: An optical spectrometer is a basic spectral instrument that probes microscopic physical and chemical properties of macroscopic objects but generally suffers from difficulty in broadband time-resolved measurement. In this work, we report the creation of ... ...

    Abstract An optical spectrometer is a basic spectral instrument that probes microscopic physical and chemical properties of macroscopic objects but generally suffers from difficulty in broadband time-resolved measurement. In this work, we report the creation of ultrabroadband white-light laser with a 3-dB bandwidth covering 385 to 1,080 nm, pulse energy of 1.07 mJ, and pulse duration of several hundred femtoseconds by passing 3-mJ pulse energy, 50-fs pulse duration Ti:Sapphire pulse laser through a cascaded fused silica plate and chirped periodically poled lithium niobate crystal. We utilize this unprecedented superflat, ultrabroadband, and intense femtosecond laser light source to build a single-shot (i.e., single-pulse) subpicosecond pulse laser ultraviolet–visible–near-infrared spectrometer and successfully measure various atomic and molecular absorption spectra. The single-shot ultrafast spectrometer may open up a frontier to monitor simultaneously the ultrafast dynamics of multiple physical and chemical processes in various microscopic systems.
    Keywords Science ; Q
    Subject code 530
    Language English
    Publishing date 2023-01-01T00:00:00Z
    Publisher American Association for the Advancement of Science
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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