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Article ; Online: An L

Wu, Di / Shang, Mingsheng / Luo, Xin / Wang, Zidong

IEEE transactions on neural networks and learning systems

2022 Volume 33, Issue 10, Page(s) 5775–5788

Abstract: ... when implementing a RS. However, current LF models mostly adopt single distance-oriented Loss like an L ...

Abstract	A recommender system (RS) is highly efficient in filtering people's desired information from high-dimensional and sparse (HiDS) data. To date, a latent factor (LF)-based approach becomes highly popular when implementing a RS. However, current LF models mostly adopt single distance-oriented Loss like an L
Language	English
Publishing date	2022-10-05
Publishing country	United States
Document type	Journal Article
ISSN	2162-2388
ISSN (online)	2162-2388
DOI	10.1109/TNNLS.2021.3071392
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Article ; Online: Joint L

Wang, Tai-Ge / Shang, Jun-Liang / Liu, Jin-Xing / Li, Feng / Yuan, Shasha / Wang, Juan

Computer methods in biomechanics and biomedical engineering

2023 Volume 27, Issue 4, Page(s) 498–511

Abstract: The development and widespread utilization of high-throughput sequencing technologies in biology has fueled the rapid growth of single-cell RNA sequencing (scRNA-seq) data over the past decade. The development of scRNA-seq technology has significantly ... ...

Abstract	The development and widespread utilization of high-throughput sequencing technologies in biology has fueled the rapid growth of single-cell RNA sequencing (scRNA-seq) data over the past decade. The development of scRNA-seq technology has significantly expanded researchers' understanding of cellular heterogeneity. Accurate cell type identification is the prerequisite for any research on heterogeneous cell populations. However, due to the high noise and high dimensionality of scRNA-seq data, improving the effectiveness of cell type identification remains a challenge. As an effective dimensionality reduction method, Principal Component Analysis (PCA) is an essential tool for visualizing high-dimensional scRNA-seq data and identifying cell subpopulations. However, traditional PCA has some defects when used in mining the nonlinear manifold structure of the data and usually suffers from over-density of principal components (PCs). Therefore, we present a novel method in this paper called joint
MeSH term(s)	Single-Cell Gene Expression Analysis ; Principal Component Analysis ; Single-Cell Analysis/methods ; Algorithms ; Cluster Analysis
Language	English
Publishing date	2023-03-13
Publishing country	England
Document type	Journal Article
ZDB-ID	2071764-7
ISSN	1476-8259 ; 1025-5842
ISSN (online)	1476-8259
ISSN	1025-5842
DOI	10.1080/10255842.2023.2188106
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Article ; Online: Biomimetic synthesis of L-DOPA inspired by tyrosine hydroxylase.

Du, Dong / Su, Yingli / Shang, Qi / Chen, Chan / Tang, Weikang / Zhang, Ling / Ren, Haisheng / Liu, Wenbin

Journal of inorganic biochemistry

2022 Volume 234, Page(s) 111878

Abstract: L-3,4-dihydroxyphenylalanine (L-DOPA) is in high demand as the cornerstone for treatment ... of Parkinson's disease. The current production of L-DOPA is associated with poor productivity and long production period ... Biomimetic system inspired from tyrosine hydroxylase was developed to achieve the production of L-DOPA ...

Abstract	L-3,4-dihydroxyphenylalanine (L-DOPA) is in high demand as the cornerstone for treatment of Parkinson's disease. The current production of L-DOPA is associated with poor productivity and long production period. Biomimetic system inspired from tyrosine hydroxylase was developed to achieve the production of L-DOPA from tyrosine with high reactivity, efficiency, and specificity. The biomimetic system owned close resemblance of component and structure in comparison with tyrosine hydroxylase, consisting of tyrosine as substrate, a redox complex of Fe
MeSH term(s)	Ascorbic Acid ; Biomimetics ; Dihydroxyphenylalanine ; Edetic Acid ; Hydrogen Peroxide ; Tandem Mass Spectrometry ; Tyrosine/chemistry ; Tyrosine 3-Monooxygenase/chemistry
Chemical Substances	Tyrosine (42HK56048U) ; Dihydroxyphenylalanine (63-84-3) ; Edetic Acid (9G34HU7RV0) ; Hydrogen Peroxide (BBX060AN9V) ; Tyrosine 3-Monooxygenase (EC 1.14.16.2) ; Ascorbic Acid (PQ6CK8PD0R)
Language	English
Publishing date	2022-05-29
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	162843-4
ISSN	1873-3344 ; 0162-0134
ISSN (online)	1873-3344
ISSN	0162-0134
DOI	10.1016/j.jinorgbio.2022.111878
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Article ; Online: Co-expression of nitrogenase proteins in cotton (Gossypium hirsutum L.).

Shang, Yimin / Guo, Wenfang / Liu, Xiaomeng / Ma, Lei / Liu, Dehu / Chen, Sanfeng

PloS one

2023 Volume 18, Issue 8, Page(s) e0290556

Abstract: Chemical nitrogen fertilizer can maintain crop productivity, but overuse of chemical nitrogen fertilizers leads to economic costs and environmental pollution. One approach to reduce use of nitrogen fertilizers is to transfer nitrogenase biosynthetic ... ...

Abstract	Chemical nitrogen fertilizer can maintain crop productivity, but overuse of chemical nitrogen fertilizers leads to economic costs and environmental pollution. One approach to reduce use of nitrogen fertilizers is to transfer nitrogenase biosynthetic pathway to non-legume plants. Fe protein encoded by nifH and MoFe protein encoded by nifD and nifK are two structural components of nitrogenase. NifB encoded by nifB is a critical maturase that catalyzes the first committed step in the biosynthesis of nitrogenase FeMo-cofactor that binds and reduces N2. Expression of the nifB, nifH, nifD and nifK is essential to generate plants that are able to fix atmospheric N2. In this study, the four genes (nifB, nifH, nifD and nifK) from Paenibacillu polymyxaWLY78 were assembled in plant expression vector pCAMBIA1301 via Cre/LoxP recombination system, yielding the recombinant expression vector pCAMBIA1301-nifBHDK. Then, the four nif genes carried in the expression vector were co-introduced into upland cotton R15 using Agrobacterium tumefaciens-mediated transformation. Homozygous transgenic cotton lines B2, B5 and B17 of T3 generation were selected by PCR and RT-PCR. qRT-PCR showed that nifB, nifH, nifD and nifK were co-expressed in the transgenic cottons at similar levels. Western blotting analysis demonstrated that NifB, NifH, NifD and NifK were co-produced in the transgenic cottons. Co-expression of the four critical Nif proteins (NifB, NifH, NifD and NifK) in cottons represents an important step in engineering nitrogenase biosynthetic pathway to non-legume plants.
MeSH term(s)	Gossypium/genetics ; Nitrogenase/genetics ; Fertilizers ; Agrobacterium tumefaciens ; Nitrogen
Chemical Substances	Nitrogenase (EC 1.18.6.1) ; Fertilizers ; Nitrogen (N762921K75)
Language	English
Publishing date	2023-08-24
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2267670-3
ISSN	1932-6203 ; 1932-6203
ISSN (online)	1932-6203
ISSN	1932-6203
DOI	10.1371/journal.pone.0290556
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Article ; Online: Inhibition of multiple SARS-CoV-2 variants entry by Lycium barbarum L. polysaccharides through disruption of spike protein-ACE2 interaction.

Li, Jingxuan / Liu, Feng / Wu, Fushan / Su, Xiaoyue / Zhang, Lihui / Zhao, Xueru / Shang, Chao / Han, Lu / Zhang, Yongxiang / Xiao, Zhiyong / Zhou, Wenxia

International journal of biological macromolecules

2024 Volume 261, Issue Pt 1, Page(s) 129785

Abstract: Viral respiratory infections are major human health concerns. The most striking epidemic disease, COVID-19 is still on going with the emergence of fast mutations and drug resistance of pathogens. A few polysaccharide macromolecules from traditional ... ...

Abstract	Viral respiratory infections are major human health concerns. The most striking epidemic disease, COVID-19 is still on going with the emergence of fast mutations and drug resistance of pathogens. A few polysaccharide macromolecules from traditional Chinese medicine (TCM) have been found to have direct anti-SARS-CoV-2 activity but the mechanism remains unclear. In this study, we evaluated the entry inhibition effect of Lycium barbarum polysaccharides (LBP) in vitro and in vivo. We found LBP effectively suppressed multiple SARS-CoV-2 variants entry and protected K18-hACE2 mice from invasion with Omicron pseudovirus (PsV). Moreover, we found LBP interfered with early entry events during infection in time-of-addition (TOA) assay and SEM observation. Further surface plasmon resonance (SPR) study revealed the dual binding of LBP with Spike protein and ACE2, which resulted in the disruption of Spike-ACE2 interaction and subsequently triggered membrane fusion. Therefore, LBP may act as broad-spectrum inhibitors of virus entry and nasal mucosal protective agent against newly emerging respiratory viruses, especially SARS-CoV-2.
MeSH term(s)	Humans ; Animals ; Mice ; SARS-CoV-2 ; COVID-19 ; Angiotensin-Converting Enzyme 2 ; Lycium ; Spike Glycoprotein, Coronavirus ; Protein Binding
Chemical Substances	Angiotensin-Converting Enzyme 2 (EC 3.4.17.23) ; spike protein, SARS-CoV-2 ; Spike Glycoprotein, Coronavirus
Language	English
Publishing date	2024-01-27
Publishing country	Netherlands
Document type	Journal Article
ZDB-ID	282732-3
ISSN	1879-0003 ; 0141-8130
ISSN (online)	1879-0003
ISSN	0141-8130
DOI	10.1016/j.ijbiomac.2024.129785
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Article ; Online: S-adenosyl-L-methionine alleviates the senescence of MSCs through the PI3K/AKT/FOXO3a signaling pathway.

Shang, Lipeng / Li, Xiaoxia / Ding, Xiaoyan / Liu, Guoxiang / Pan, Zhen / Chen, Xiangyan / Wang, Yuelei / Li, Bing / Wang, Ting / Zhao, Robert Chunhua

Stem cells (Dayton, Ohio)

2024

Abstract: ... including drug-based approaches, are active areas of research. In this context, S-adenosyl-L-methionine (SAM ...

Abstract	Cellular senescence significantly affects the proliferative and differentiation capacities of mesenchymal stem cells (MSCs). Identifying key regulators of senescence and exploring potential intervention strategies, including drug-based approaches, are active areas of research. In this context, S-adenosyl-L-methionine (SAM), a critical intermediate in sulfur amino acid metabolism, emerges as a promising candidate for mitigating MSC senescence. In a hydrogen peroxide-induced MSC aging model (100μM for 2h), SAM (50μM and 100μM) was revealed to alleviate the senescence of MSCs, and also attenuated the level of ROS and enhanced the adipogenic and osteogenic differentiation in senescent MSCs. In a premature aging mouse model (subcutaneously injected with 150 mg/kg/d D-galactose in the neck and back for 7 weeks), SAM (30 mg/kg/d by gavage for 5 weeks) was shown to delay the overall aging process while increasing the number and thickness of bone trabeculae in the distal femur. Mechanistically, activation of PI3K/AKT signaling and increased phosphorylation of FOXO3a was proved to be associated with the anti-senescence role of SAM. These findings highlight that the PI3K/AKT/FOXO3a axis in MSCs could play a crucial role in MSCs senescence and suggest that SAM may be a potential therapeutic drug for MSCs senescence and related diseases.
Language	English
Publishing date	2024-03-01
Publishing country	England
Document type	Journal Article
ZDB-ID	1143556-2
ISSN	1549-4918 ; 1066-5099
ISSN (online)	1549-4918
ISSN	1066-5099
DOI	10.1093/stmcls/sxae010
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Article ; Online: L-cysteine contributes to destructive activities of odontogenic cysts/tumor.

Li, Ji / Feng, Chunyu / Pang, Xiaochan / Li, Xiang / Dou, Xinyu / Jiang, Erhui / Shang, Zhengjun

Discover. Oncology

2024 Volume 15, Issue 1, Page(s) 109

Abstract: ... differential analysis identified L-cysteine in OKC and AM. Cystathionine γ-lyase (CTH) was further screened ... by Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis. The functions of L-cysteine were further ... confirmed the unique alteration of metabolic profiles in OKC and AM. CTH and its metabolite L-cysteine are ...

Abstract	Background: Odontogenic cysts/tumor can cause severe bone destruction, which affects maxillofacial function and aesthetics. Meanwhile, metabolic reprogramming is an important hallmark of diseases. Changes in metabolic flow affect all aspects of disease, especially bone-related diseases. At present, the researches on pathogenesis of odontogenic cysts/tumor are mainly focused on the level of gene regulation, but the effects of metabolic alterations on odontogenic cysts/tumor have still underexplored. Materials and methods: Imaging analysis was used to evaluate the lesion size of different odontogenic lesions. Tartrate resistant acid phosphatase (TRAP) and immunohistochemistry (IHC) assays were utilized to detect the differences in bone destruction activity in odontogenic cysts and tumors. Furthermore, metabolomics and weighted gene co-expression network analysis (WGCNA) were conducted for the metabolomic features and key metabolite screening, respectively. The effect of ferroptosis inhibition on bone destruction was confirmed by IHC, immunofluorescence, and malondialdehyde colorimetric assay. Results: The bone destruction activity of ameloblastoma (AM) was the strongest and the weakest in odontogenic cysts (OC). High-throughput targeted metabolomics was used to map the metabolomic profiles of OC, odontogenic keratocyst (OKC) and AM. WGCNA and differential analysis identified L-cysteine in OKC and AM. Cystathionine γ-lyase (CTH) was further screened by Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis. The functions of L-cysteine were further validated. Finally, we confirmed that CTH affected destructive activities by regulating the sensitivity of epithelial cells to ferroptosis. Conclusion: High-throughput targeted metabolomics performed on diseased tissue confirmed the unique alteration of metabolic profiles in OKC and AM. CTH and its metabolite L-cysteine are the key factors regulating destructive activities.
Language	English
Publishing date	2024-04-08
Publishing country	United States
Document type	Journal Article
ISSN	2730-6011
ISSN (online)	2730-6011
DOI	10.1007/s12672-024-00959-5
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Article ; Online: Co-immunization with L-Myc enhances CD8

Chai, Dafei / Zhang, Zichun / Jiang, Nan / Ding, Jiage / Qiu, Dong / Shi, Shang Yuchen / Wang, Gang / Fang, Lin / Li, Huizhong / Tian, Hui / Yang, Jie / Zhang, Qing / Zheng, Junnian

Cancer science

2021 Volume 112, Issue 9, Page(s) 3469–3483

Abstract: ... we developed a chitosan (CS) nanoparticle-mediated DNA vaccine containing an activated factor L-Myc and a tumor ...

Abstract	Renal carcinoma shows a high risk of invasion and metastasis without effective treatment. Herein, we developed a chitosan (CS) nanoparticle-mediated DNA vaccine containing an activated factor L-Myc and a tumor-specific antigen CAIX for renal carcinoma treatment. The subcutaneous tumor models were intramuscularly immunized with CS-pL-Myc/pCAIX or control vaccine, respectively. Compared with single immunization group, the tumor growth was significantly suppressed in CS-pL-Myc/pCAIX co-immunization group. The increased proportion and mature of CD11c
MeSH term(s)	Animals ; Antigens, CD/metabolism ; Antigens, Neoplasm/administration & dosage ; Antigens, Neoplasm/genetics ; CD8 Antigens/metabolism ; CD8-Positive T-Lymphocytes/immunology ; Carbonic Anhydrase IX/administration & dosage ; Carbonic Anhydrase IX/genetics ; Carcinoma, Renal Cell/immunology ; Carcinoma, Renal Cell/pathology ; Carcinoma, Renal Cell/therapy ; Chitosan/chemistry ; Dendritic Cells/immunology ; Disease Models, Animal ; Drug Delivery Systems/methods ; Female ; HEK293 Cells ; Humans ; Immunity ; Immunization/methods ; Integrin alpha Chains/metabolism ; Kidney Neoplasms/immunology ; Kidney Neoplasms/pathology ; Kidney Neoplasms/therapy ; Mice ; Mice, Inbred BALB C ; Nanoparticles/chemistry ; Proto-Oncogene Proteins c-myc/administration & dosage ; Proto-Oncogene Proteins c-myc/genetics ; Treatment Outcome ; Vaccines, DNA/administration & dosage ; Vaccines, DNA/immunology
Chemical Substances	Antigens, CD ; Antigens, Neoplasm ; CD8 Antigens ; Integrin alpha Chains ; Proto-Oncogene Proteins c-myc ; Vaccines, DNA ; alpha E integrins ; Chitosan (9012-76-4) ; CA9 protein, human (EC 4.2.1.1) ; Carbonic Anhydrase IX (EC 4.2.1.1)
Language	English
Publishing date	2021-07-10
Publishing country	England
Document type	Journal Article
ZDB-ID	2115647-5
ISSN	1349-7006 ; 1347-9032
ISSN (online)	1349-7006
ISSN	1347-9032
DOI	10.1111/cas.15044
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Article ; Online: Enzymatic colorimetric method for turn-on determination of l-lactic acid through indicator displacement assay.

Ran, Zhaoqi / Wang, Xiawen / Zhang, Ling / Yang, Yang / Shang, Zhongtao / Chen, Qinfei / Ma, Xiaochen / Qian, Zhuoqun / Liu, Wenbin

Journal of bioscience and bioengineering

2023 Volume 136, Issue 3, Page(s) 159–165

Abstract: l-Lactic acid is a natural α-hydroxy carboxylic acid and is commonly used as an addictive ... Quantitation of l-lactic acid is indispensable in food and cosmetic industries. An enzymatic colorimetric ... method was developed for the determination of l-lactic acid by competitive indicator displacement assay ...

Abstract	l-Lactic acid is a natural α-hydroxy carboxylic acid and is commonly used as an addictive. Quantitation of l-lactic acid is indispensable in food and cosmetic industries. An enzymatic colorimetric method was developed for the determination of l-lactic acid by competitive indicator displacement assay. Boric acid inhibited the colorimetric reaction of l-3,4-dihydroxyphenylalanine (l-DOPA) catalyzed by tyrosinase. l-Lactic acid competitively displaced and released l-DOPA bound with boric acid to serve as substrate, and thus restored the tyrosinase activity. Recovery of color reaction could be spectrophotometrically determined at 475 nm and was proportional to the amount of l-lactic acid. A calibration curve between l-lactic acid concentration and recovery of absorbance were built. The concentration range of the l-lactic acid was 0.25-2.25 mM. The limit of detection (LOD) and the limit of quantification (LOQ) for l-lactic acid was estimated to be 0.05 mM and 0.16 mM, respectively. The method achieved turn-on and visual sensing with good precision, accuracy, specificity, and robustness. The assay method exhibited a promising prospect to determine the content of l-lactic acid in foods and cosmetics.
MeSH term(s)	Colorimetry ; Levodopa ; Monophenol Monooxygenase ; Lactic Acid/chemistry ; Carboxylic Acids
Chemical Substances	boric acid (R57ZHV85D4) ; Levodopa (46627O600J) ; Monophenol Monooxygenase (EC 1.14.18.1) ; Lactic Acid (33X04XA5AT) ; Carboxylic Acids
Language	English
Publishing date	2023-06-19
Publishing country	Japan
Document type	Journal Article
ZDB-ID	1465387-4
ISSN	1347-4421 ; 1389-1723
ISSN (online)	1347-4421
ISSN	1389-1723
DOI	10.1016/j.jbiosc.2023.06.001
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Article ; Online: Deep Eutectic Solvents Based on L-Arginine and 2-Hydroxypropyl-β-Cyclodextrin for Drug Carrier and Penetration Enhancement.

Lv, Jianhua / Wu, Pan / Fang, Yaru / Zhang, Wenchang / Liu, Dongwen / Wu, Mi / Shang, Lei / Li, Huaiguo / Zhao, Yan

AAPS PharmSciTech

2023 Volume 24, Issue 7, Page(s) 187

Abstract: By selecting L-arginine as the hydrogen bond acceptor (HBA) and 2-hydroxypropyl-β-cyclodextrin ... prepared at the 4:1 mass ratio of L-arginine to 2HPβCD with 40 to 60% of water, and were studied ...

Abstract	By selecting L-arginine as the hydrogen bond acceptor (HBA) and 2-hydroxypropyl-β-cyclodextrin (2HPβCD) as the hydrogen bond donor (HBD), deep eutectic solvents (DESs) with various water content were prepared at the 4:1 mass ratio of L-arginine to 2HPβCD with 40 to 60% of water, and were studied for its application in transdermal drug delivery system (TDDS). The hydrogen bond networks and internal chemistry structures of the DESs were measured by attenuated total reflection Fourier transform infrared (ATR-FTIR) and
MeSH term(s)	Drug Carriers ; 2-Hydroxypropyl-beta-cyclodextrin ; Deep Eutectic Solvents ; Arginine ; Lidocaine
Chemical Substances	Drug Carriers ; 2-Hydroxypropyl-beta-cyclodextrin (1I96OHX6EK) ; Deep Eutectic Solvents ; Arginine (94ZLA3W45F) ; Lidocaine (98PI200987)
Language	English
Publishing date	2023-09-12
Publishing country	United States
Document type	Journal Article
ZDB-ID	2052070-0
ISSN	1530-9932 ; 1530-9932
ISSN (online)	1530-9932
ISSN	1530-9932
DOI	10.1208/s12249-023-02638-0
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