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  • Frontiers Media SA  (15)
  • 1
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    Deficit Subsurface Drip Irrigation Improves Water Use Efficiency and Stabilizes Yield by Enhancing Subsoil Water Extraction in Winter Wheat
    Frontiers Media SA ; 2020
    In:  Frontiers in Plant Science Vol. 11 ( 2020-5-6)
    Details
    In: Frontiers in Plant Science, Frontiers Media SA, Vol. 11 ( 2020-5-6)
    Type of Medium: Online Resource
    ISSN: 1664-462X
    URL: Article
    DOI: 10.3389/fpls.2020.00508
    Language: Unknown
    Publisher: Frontiers Media SA
    Publication Date: 2020
    detail.hit.zdb_id: 2687947-5
    detail.hit.zdb_id: 2613694-6
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  • 2
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    Data_Sheet_1.docx
    Frontiers Media SA ; 2022
    In:  Frontiers in Neurology Vol. 13 ( 2022-10-28)
    Details
    In: Frontiers in Neurology, Frontiers Media SA, Vol. 13 ( 2022-10-28)
    Abstract: This study aimed to explore the neurological effects of dexmedetomidine-induced sedation on memory using functional stability, a whole-brain voxel-wise dynamic functional connectivity approach. Methods A total of 16 participants (10 men) underwent auditory memory task-related fMRI in the awake state and under dexmedetomidine sedation. Explicit and implicit memory tests were conducted 4 h after ceasing dexmedetomidine administration. One-sample Wilcoxon signed rank test was applied to determine the formation of explicit and implicit memory in the two states. Functional stability was calculated and compared voxel-wise between the awake and sedated states. The association between functional stability and memory performance was also assessed. Results In the awake baseline tests, explicit and implicit memory scores were significantly different from zero ( p & lt; 0.05). In the tests under sedation, explicit and implicit memory scores were not significantly different from zero. Compared to that at wakeful baseline, functional stability during light sedation was reduced in the medial prefrontal cortex, left angular gyrus, and right hippocampus (all clusters, p & lt; 0.05, GRF-corrected), whereas the left superior temporal gyrus exhibited higher functional stability (cluster p & lt; 0.05, GRF-corrected). No significant associations were observed between functional stability and memory test scores. Conclusions The distribution and patterns of alterations in functional stability during sedation illustrate the modulation of functional architecture by dexmedetomidine from a dynamic perspective. Our findings provide novel insight into the dynamic brain functional networks underlying consciousness and memory in humans.
    Type of Medium: Online Resource
    ISSN: 1664-2295
    URL: Article
    URL: Article
    DOI: 10.3389/fneur.2022.928389
    DOI: 10.3389/fneur.2022.928389.s001
    Language: Unknown
    Publisher: Frontiers Media SA
    Publication Date: 2022
    detail.hit.zdb_id: 2564214-5
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  • 3
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    DataSheet1.docx
    Frontiers Media SA ; 2022
    In:  Frontiers in Pharmacology Vol. 13 ( 2022-5-19)
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    In: Frontiers in Pharmacology, Frontiers Media SA, Vol. 13 ( 2022-5-19)
    Abstract: Sepsis is an acute systemic infectious disease with high mortality, which urgently needs more effective treatment. Scutellariae radix (SR), a commonly used traditional Chinese medicine (TCM) for clearing heat and detoxification, contains rich natural products possessing anti-inflammatory activity. In previous studies, it was found that the anti-inflammatory activities of SR extracts from different ecological conditions varied wildly. Based on this, in the present study, a screening strategy of antisepsis active components from SR based on correlation analysis between plant metabolomics and pharmacodynamics was established, and the mechanism was explored. First of all, a mass spectrum database of SR (above 240 components) was established to lay the foundation for the identification of plant metabolomics by liquid chromatography tandem mass spectrometry (LC–MS/MS). Through the correlation analysis between plant metabolomics and anti-inflammatory activity of SR from different ecology regions, 10 potential components with high correlation coefficients were preliminarily screened out. After the evaluation of anti-inflammatory activity and toxicity at the cellular level, the pharmacodynamic evaluation in vivo found that oroxylin A had the potentiality of antisepsis both in LPS- and CLP-induced endotoxemia mice. Network pharmacology and Western blot (WB) results indicated that oroxylin A significantly inhibited the toll-like receptor 4/nuclear factor-kappa B (TLR4/NF-κB) signaling pathway, which was further confirmed by secreted embryonic alkaline phosphatase (SEAP) assay. Moreover, the molecular docking analysis indicated that oroxylin A might competitively inhibit LPS binding to myeloid differentiation 2 (MD-2) to block the activation of TLR4. The study provided a feasible research strategy for the screening and discovery of antisepsis candidate drugs from TCM.
    Type of Medium: Online Resource
    ISSN: 1663-9812
    URL: Article
    URL: Article
    DOI: 10.3389/fphar.2022.861105
    DOI: 10.3389/fphar.2022.861105.s001
    Language: Unknown
    Publisher: Frontiers Media SA
    Publication Date: 2022
    detail.hit.zdb_id: 2587355-6
    SSG: 15,3
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  • 4
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    A Bulk Retrospective Study of Robot-Assisted Stereotactic Biopsies of Intracranial Lesions Guided by Videometric Tracker
    Frontiers Media SA ; 2021
    In:  Frontiers in Neurology Vol. 12 ( 2021-8-4)
    Details
    In: Frontiers in Neurology, Frontiers Media SA, Vol. 12 ( 2021-8-4)
    Abstract: Background: Biopsies play an important role in the diagnosis of intracranial lesions, and robot-assisted procedures are increasingly common in neurosurgery centers. This research investigates the diagnoses, complications, and technology yield of 700 robotic frameless intracranial stereotactic biopsies conducted with the Remebot system. Method: This research considered 700 robotic biopsies performed between 2016 and 2020 by surgeons from the Department of Functional Neurosurgery in Beijing's Tiantan Hospital. The data collected included histological diagnoses, postoperative complications, operation times, and the accuracy of robotic manipulation. Results: Among the 700 surgeries, the positive rate of the biopsies was 98.2%. The most common histological diagnoses were gliomas, which accounted for 62.7% of cases (439/700), followed by lymphoma and germinoma, which accounted for 18.7% (131/700) and 7.6% (53/700). Bleeding was found in 14 patients (2%) by post-operation computed tomography scans. A total of 29 (4.14%) patients had clinical impairments after the operation, and 9 (1.29%) experienced epilepsy during the operation. The post-biopsy mortality rate was 0.43%. Operation time—from marking the cranial point to suturing the skin—was 16.78 ± 3.31 min (range 12–26 min). The target error was 1.13 ± 0.30 mm, and the entry point error was 0.99 ± 0.24 mm. Conclusion: A robot-assisted frameless intracranial stereotactic biopsy guided by a videometric tracker is an efficient, safe, and accurate method for biopsies.
    Type of Medium: Online Resource
    ISSN: 1664-2295
    URL: Article
    DOI: 10.3389/fneur.2021.682733
    Language: Unknown
    Publisher: Frontiers Media SA
    Publication Date: 2021
    detail.hit.zdb_id: 2564214-5
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  • 5
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    DataSheet1.docx
    Frontiers Media SA ; 2022
    In:  Frontiers in Genetics Vol. 13 ( 2022-2-28)
    Details
    In: Frontiers in Genetics, Frontiers Media SA, Vol. 13 ( 2022-2-28)
    Abstract: Non-coding RNAs (ncRNAs) take essential effects on biological processes, like gene regulation. One critical way of ncRNA executing biological functions is interactions between ncRNA and RNA binding proteins (RBPs). Identifying proteins, involving ncRNA-protein interactions, can well understand the function ncRNA. Many high-throughput experiment have been applied to recognize the interactions. As a consequence of these approaches are time- and labor-consuming, currently, a great number of computational methods have been developed to improve and advance the ncRNA-protein interactions research. However, these methods may be not available to all RNAs and proteins, particularly processing new RNAs and proteins. Additionally, most of them cannot process well with long sequence. In this work, a computational method SAWRPI is proposed to make prediction of ncRNA-protein through sequence information. More specifically, the raw features of protein and ncRNA are firstly extracted through the k-mer sparse matrix with SVD reduction and learning nucleic acid symbols by natural language processing with local fusion strategy, respectively. Then, to classify easily, Hilbert Transformation is exploited to transform raw feature data to the new feature space. Finally, stacking ensemble strategy is adopted to learn high-level abstraction features automatically and generate final prediction results. To confirm the robustness and stability, three different datasets containing two kinds of interactions are utilized. In comparison with state-of-the-art methods and other results classifying or feature extracting strategies, SAWRPI achieved high performance on three datasets, containing two kinds of lncRNA-protein interactions. Upon our finding, SAWRPI is a trustworthy, robust, yet simple and can be used as a beneficial supplement to the task of predicting ncRNA-protein interactions.
    Type of Medium: Online Resource
    ISSN: 1664-8021
    URL: Article
    URL: Article
    DOI: 10.3389/fgene.2022.839540
    DOI: 10.3389/fgene.2022.839540.s001
    Language: Unknown
    Publisher: Frontiers Media SA
    Publication Date: 2022
    detail.hit.zdb_id: 2606823-0
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  • 6
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    BNEMDI: A Novel MicroRNA–Drug Interaction Prediction Model Based on Multi-Source Information With a Large-Scale Biological Network
    Frontiers Media SA ; 2022
    In:  Frontiers in Genetics Vol. 13 ( 2022-7-15)
    Details
    In: Frontiers in Genetics, Frontiers Media SA, Vol. 13 ( 2022-7-15)
    Abstract: As a novel target in pharmacy, microRNA (miRNA) can regulate gene expression under specific disease conditions to produce specific proteins. To date, many researchers leveraged miRNA to reveal drug efficacy and pathogenesis at the molecular level. As we all know that conventional wet experiments suffer from many problems, including time-consuming, labor-intensity, and high cost. Thus, there is an urgent need to develop a novel computational model to facilitate the identification of miRNA–drug interactions (MDIs). In this work, we propose a novel bipartite network embedding-based method called BNEMDI to predict MDIs. First, the Bipartite Network Embedding (BiNE) algorithm is employed to learn the topological features from the network. Then, the inherent attributes of drugs and miRNAs are expressed as attribute features by MACCS fingerprints and k -mers. Finally, we feed these features into deep neural network (DNN) for training the prediction model. To validate the prediction ability of the BNEMDI model, we apply it to five different benchmark datasets under five-fold cross-validation, and the proposed model obtained excellent AUC values of 0.9568, 0.9420, 0.8489, 0.8774, and 0.9005 in ncDR, RNAInter, SM2miR1, SM2miR2, and SM2miR MDI datasets, respectively. To further verify the prediction performance of the BNEMDI model, we compare it with some existing powerful methods. We also compare the BiNE algorithm with several different network embedding methods. Furthermore, we carry out a case study on a common drug named 5-fluorouracil. Among the top 50 miRNAs predicted by the proposed model, there were 38 verified by the experimental literature. The comprehensive experiment results demonstrated that our method is effective and robust for predicting MDIs. In the future work, we hope that the BNEMDI model can be a reliable supplement method for the development of pharmacology and miRNA therapeutics.
    Type of Medium: Online Resource
    ISSN: 1664-8021
    URL: Article
    DOI: 10.3389/fgene.2022.919264
    Language: Unknown
    Publisher: Frontiers Media SA
    Publication Date: 2022
    detail.hit.zdb_id: 2606823-0
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  • 7
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    Effects of Rhythmic Auditory Stimulation on Gait and Motor Function in Parkinson's Disease: A Systematic Review and Meta-Analysis of Clinical Randomized Controlled Studies
    Frontiers Media SA ; 2022
    In:  Frontiers in Neurology Vol. 13 ( 2022-4-15)
    Details
    In: Frontiers in Neurology, Frontiers Media SA, Vol. 13 ( 2022-4-15)
    Abstract: This study aimed to summarize the effectiveness of rhythmic auditory stimulation (RAS) for the treatment of gait and motor function in Parkinson's disease (PD) through a systematic review and meta-analysis. Methods All studies were retrieved from eight databases. The effects of RAS on PD were determined using the following indicators: gait parameters including step length, stride width, step cadence, velocity, stride length; motor function including 6 min walk test (6MWT) and timed up-and-go test (TUGT); the Unified Parkinson's Disease Rating Scale (UPDRS); and the Berg Balance Scale (BBS). The risk map of bias of the quality of the studies and the meta-analysis results of the indicators was prepared with RevMan 5.2 software. Results Twenty-one studies were included in the systematic review, and 14 studies were included in the meta-analysis. In the meta-analysis, the results of gait parameters, namely, velocity, step length, and stride length, were statistically significant ( P & lt; 0.05), whereas the results of cadence and stride width were not statistically significant ( P ≧ 0.05). The results of 6MWT and TUGT for motor function as well as UPDRS-II, UPDRS-III, and BBS were statistically significant ( P & lt; 0.05). Conclusions RAS could improve gait parameters, walking function, balance function, and daily living activities of individuals with PD. The application of RAS in conventional rehabilitation approaches can enhance motor performance in PD. Future studies should use a large sample size and a rigorous design to obtain strong conclusions about the advantages of RAS for the treatment of gait and motor function in PD.
    Type of Medium: Online Resource
    ISSN: 1664-2295
    URL: Article
    DOI: 10.3389/fneur.2022.818559
    Language: Unknown
    Publisher: Frontiers Media SA
    Publication Date: 2022
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  • 8
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    KGDCMI: A New Approach for Predicting circRNA–miRNA Interactions From Multi-Source Information Extraction and Deep Learning
    Frontiers Media SA ; 2022
    In:  Frontiers in Genetics Vol. 13 ( 2022-8-16)
    Details
    In: Frontiers in Genetics, Frontiers Media SA, Vol. 13 ( 2022-8-16)
    Abstract: Emerging evidence has revealed that circular RNA (circRNA) is widely distributed in mammalian cells and functions as microRNA (miRNA) sponges involved in transcriptional and posttranscriptional regulation of gene expression. Recognizing the circRNA–miRNA interaction provides a new perspective for the detection and treatment of human complex diseases. Compared with the traditional biological experimental methods used to predict the association of molecules, which are limited to the small-scale and are time-consuming and laborious, computing models can provide a basis for biological experiments at low cost. Considering that the proposed calculation model is limited, it is necessary to develop an effective computational method to predict the circRNA–miRNA interaction. This study thus proposed a novel computing method, named KGDCMI, to predict the interactions between circRNA and miRNA based on multi-source information extraction and fusion. The KGDCMI obtains RNA attribute information from sequence and similarity, capturing the behavior information in RNA association through a graph-embedding algorithm. Then, the obtained feature vector is extracted further by principal component analysis and sent to the deep neural network for information fusion and prediction. At last, KGDCMI obtains the prediction accuracy (area under the curve [AUC] = 89.30% and area under the precision–recall curve [AUPR] = 87.67%). Meanwhile, with the same dataset, KGDCMI is 2.37% and 3.08%, respectively, higher than the only existing model, and we conducted three groups of comparative experiments, obtaining the best classification strategy, feature extraction parameters, and dimensions. In addition, in the performed case study, 7 of the top 10 interaction pairs were confirmed in PubMed. These results suggest that KGDCMI is a feasible and useful method to predict the circRNA–miRNA interaction and can act as a reliable candidate for related RNA biological experiments.
    Type of Medium: Online Resource
    ISSN: 1664-8021
    URL: Article
    DOI: 10.3389/fgene.2022.958096
    Language: Unknown
    Publisher: Frontiers Media SA
    Publication Date: 2022
    detail.hit.zdb_id: 2606823-0
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  • 9
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    LPIH2V: LncRNA-protein interactions prediction using HIN2Vec based on heterogeneous networks model
    Frontiers Media SA ; 2023
    In:  Frontiers in Genetics Vol. 14 ( 2023-2-10)
    Details
    In: Frontiers in Genetics, Frontiers Media SA, Vol. 14 ( 2023-2-10)
    Abstract: LncRNA-protein interaction plays an important role in the development and treatment of many human diseases. As the experimental approaches to determine lncRNA–protein interactions are expensive and time-consuming, considering that there are few calculation methods, therefore, it is urgent to develop efficient and accurate methods to predict lncRNA-protein interactions. In this work, a model for heterogeneous network embedding based on meta-path, namely LPIH2V, is proposed. The heterogeneous network is composed of lncRNA similarity networks, protein similarity networks, and known lncRNA-protein interaction networks. The behavioral features are extracted in a heterogeneous network using the HIN2Vec method of network embedding. The results showed that LPIH2V obtains an AUC of 0.97 and ACC of 0.95 in the 5-fold cross-validation test. The model successfully showed superiority and good generalization ability. Compared to other models, LPIH2V not only extracts attribute characteristics by similarity, but also acquires behavior properties by meta-path wandering in heterogeneous networks. LPIH2V would be beneficial in forecasting interactions between lncRNA and protein.
    Type of Medium: Online Resource
    ISSN: 1664-8021
    URL: Article
    DOI: 10.3389/fgene.2023.1122909
    Language: Unknown
    Publisher: Frontiers Media SA
    Publication Date: 2023
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  • 10
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    Image_1.JPEG
    Frontiers Media SA ; 2023
    In:  Frontiers in Microbiology Vol. 14 ( 2023-7-5)
    Details
    In: Frontiers in Microbiology, Frontiers Media SA, Vol. 14 ( 2023-7-5)
    Abstract: Spent mushroom substrate (SMS) is the by-products of mushroom production, which is mainly composed of disintegrated lignocellulosic biomass, mushroom mycelia and some minerals. The huge output and the lack of effective utilization methods make SMS becoming a serious environmental problem. In order to improve the application of SMS and SMS derived biochar (SBC), composted SMS (CSMS), SBC, combined plant growth-promoting rhizobacteria (PGPR, Bacillus subtilis BUABN-01 and Arthrobacter pascens BUAYN-122) and SBC immobilized PGPR (BCP) were applied in the lettuce seedling. Seven substrate treatments were used, including (1) CK, commercial control; (2) T1, CSMS based blank control; (3) T2, T1 with combined PGPR (9:1, v/v); (4) T3, T1 with SBC (19:1, v/v); (5) T4, T1 with SBC (9:1, v/v); (6) T5, T1 with BCP (19:1, v/v); (7) T6, T1 with BCP (9:1, v/v). The physicochemical properties of substrate, agronomic and physicochemical properties of lettuce and rhizospheric bacterial and fungal communities were investigated. The addition of SBC and BCP significantly ( p & lt; 0.05) improved the total nitrogen and available potassium content. The 5% (v/v) BCP addiction treatment (T5) represented the highest fresh weight of aboveground and underground, leave number, chlorophyll content and leaf anthocyanin content, and the lowest root malondialdehyde content. Moreover, high throughput sequencing revealed that the biochar immobilization enhanced the adaptability of PGPR. The addition of PGPR, SBC and BCP significantly enriched the unique bacterial biomarkers. The co-occurrence network analysis revealed that 5% BCP greatly increased the network complexity of rhizospheric microorganisms and improved the correlations of the two PGPR with other microorganisms. Furthermore, microbial functional prediction indicated that BCP enhanced the nutrient transport of rhizospheric microorganisms. This study showed the BCP can increase the agronomic properties of lettuce and improve the rhizospheric microbial community.
    Type of Medium: Online Resource
    ISSN: 1664-302X
    URL: Article
    URL: Article
    URL: Article
    DOI: 10.3389/fmicb.2023.1218205
    DOI: 10.3389/fmicb.2023.1218205.s001
    DOI: 10.3389/fmicb.2023.1218205.s002
    Language: Unknown
    Publisher: Frontiers Media SA
    Publication Date: 2023
    detail.hit.zdb_id: 2587354-4
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