In order to achieve real-time updating of the domain knowledge graph and improve the relationship extraction ability in the construction process, a domain knowledge graph construction method is ...proposed. Based on the structured knowledge in Wikipedia’s classification system, we acquire concepts and instances contained in subject areas. A relationship extraction algorithm based on co-word analysis is intended to extract the classification relationships in semi-structured open labels. A Bi-GRU remote supervised relationship extraction model based on a multiple-scale attention mechanism and an improved cross-entropy loss function is proposed to obtain the non-classification relationships of concepts in unstructured texts. Experiments show that the proposed model performs better than the existing methods. Based on the obtained concepts, instances and relationships, a domain knowledge graph is constructed and the domain-independent nodes and relationships contained in them are removed through a vector variance algorithm. The effectiveness of the proposed method is verified by constructing a food domain knowledge graph based on Wikipedia.
As a semantic knowledge base, knowledge graph is a powerful tool for managing large-scale knowledge consists with instances, concepts and relationships between them. In view that the existing domain ...knowledge graphs can not obtain relationships in various structures through targeted approaches in the process of construction which resulting in insufficient knowledge utilization, this paper proposes a relationship extraction method for domain knowledge graph construction. We obtain upper and lower relationships from structured data in the classification system of network encyclopedia and semi-structured data in the classification labels of web pages, and non-superordinate relationships are extracted from unstructured text through the proposed convolution residual network based on improved cross-entropy loss function. We verify the effectiveness of the designed method by comparing with existing relationship extraction methods and constructing a food domain knowledge graph.
Parameters of soil constitutive models are usually identified through laboratory tests. The spatial variability of these parameters is generally not considered due to the limitation of the test ...scale. This study proposes a data‐driven approach to infer the spatially varying parameter of the modified Cam‐clay model from limited field observations and subsequently improves soil settlement predictions. The observation data and numerical results of random finite element method are assimilated in an inverse modeling process based on the iterative Ensemble Kalman filtering (iEnKF). Different unknown variables and number of observations are used to study their effects on parameter estimations and settlement predictions. The effectiveness of the proposed approach is illustrated through a synthetic partial‐loading test. The results show that the site‐specific spatial variability can be estimated reasonably, and predictions of settlement can be improved by using the inferred parameter field. When the variables to be inferred change from all 60 variables to the selected 17 important variables, the average error of the estimated fields increases, but the variance decreases. A reduction in the observation spacing and an increase in the number of observations lead to a slightly smaller error of the mean and considerably reduced uncertainties of soil parameters. Although the inferred results of parameter field show different accuracies, the corresponding calculated settlements are generally similar and satisfactory.
MicroRNAs (miRNAs) play crucial roles in gene expression regulation through RNA cleavage or translation repression. Here, we report the identification of an evolutionarily conserved WD40 domain ...protein as a player in miRNA biogenesis in Arabidopsis thaliana. A mutation in the REDUCTION IN BLEACHED VEIN AREA (RBV) gene encoding a WD40 domain protein led to the suppression of leaf bleaching caused by an artificial miRNA; the mutation also led to a global reduction in the accumulation of endogenous miRNAs. The nuclear protein RBV promotes the transcription of MIR genes into pri-miRNAs by enhancing the occupancy of RNA polymerase II (Pol II) at MIR gene promoters. RBV also promotes the loading of miRNAs into AGO1. In addition, RNA-seq revealed a global splicing defect in the mutant. Thus, this evolutionarily conserved, nuclear WD40 domain protein acts in miRNA biogenesis and RNA splicing.
Small RNAs (sRNAs) of the fungal pathogen Botrytis cinerea can enter plant cells and hijack host Argonaute protein 1 (AGO1) to silence host immunity genes. However, the mechanism by which these ...fungal sRNAs are secreted and enter host cells remains unclear. Here, we demonstrate that B. cinerea utilizes extracellular vesicles (EVs) to secrete Bc-sRNAs, which are then internalized by plant cells through clathrin-mediated endocytosis (CME). The B. cinerea tetraspanin protein, Punchless 1 (BcPLS1), serves as an EV biomarker and plays an essential role in fungal pathogenicity. We observe numerous Arabidopsis clathrin-coated vesicles (CCVs) around B. cinerea infection sites and the colocalization of B. cinerea EV marker BcPLS1 and Arabidopsis CLATHRIN LIGHT CHAIN 1, one of the core components of CCV. Meanwhile, BcPLS1 and the B. cinerea-secreted sRNAs are detected in purified CCVs after infection. Arabidopsis knockout mutants and inducible dominant-negative mutants of key components of the CME pathway exhibit increased resistance to B. cinerea infection. Furthermore, Bc-sRNA loading into Arabidopsis AGO1 and host target gene suppression are attenuated in those CME mutants. Together, our results demonstrate that fungi secrete sRNAs via EVs, which then enter host plant cells mainly through CME.
Background
Although the National Comprehensive Cancer Network (NCCN) guidelines recommend use of lymph node dissection (LND) in patients with pancreatic neuroendocrine tumors (pNETs) > 2 cm, there is ...limited evidence to support the association between use of LND and overall survival (OS).
Methods
Patients with resected pNETs were identified in the National Cancer Database (2004–2014). The inverse probability of treatment weighting (IPTW) method was used to reduce the selection bias. IPTW-adjusted Kaplan–Meier curves and Cox proportional hazards models were used to compare OS of patients in different treatment groups.
Results
A total of 2664 patients diagnosed met the study entry criteria. Of these, 2132 patients (80.6%) received LND, with a median of nine nodes removed. Positive nodes were identified in 28.0% of patients who underwent LND. IPTW-adjusted Kaplan–Meier analysis showed that median OS was similar between the LND and LND-omitted groups (152.8 vs. 147.3 months;
p
= 0.61). In IPTW-adjusted Cox proportional hazards regression analysis, LND was not associated with an OS benefit (hazard ratio HR 1.15, 95% confidence interval CI 0.94–1.42;
p
= 0.18). The results were consistent across subgroups stratified by clinical T and N stages. Among patients with lymph node metastasis, the number of removed nodes (NRN) above the median was not associated with an improved OS (HR 0.82, 95% CI 0.60–1.13;
p
= 0.22).
Conclusions
LND had no additional therapeutic benefit among patients undergoing resection for pNETs. The present findings should be considered when managing patients with resectable pNETs.
Plants use extracellular vesicles (EVs) to transport small RNAs (sRNAs) into their fungal pathogens and silence fungal virulence-related genes through a phenomenon called 'cross-kingdom RNAi'. It ...remains unknown, however, how sRNAs are selectively loaded into EVs. Here, we identified several RNA-binding proteins in Arabidopsis, including Argonaute 1 (AGO1), RNA helicases (RHs) and annexins (ANNs), which are secreted by exosome-like EVs. AGO1, RH11 and RH37 selectively bind to EV-enriched sRNAs but not to non-EV-associated sRNAs, suggesting that they contribute to the selective loading of sRNAs into EVs. Conversely, ANN1 and ANN2 bind to sRNAs non-specifically. The ago1, rh11 rh37 and ann1 ann2 mutants showed reduced secretion of sRNAs in EVs, demonstrating that these RNA-binding proteins play an important role in sRNA loading and/or stabilization in EVs. Furthermore, rh11 rh37 and ann1 ann2 showed increased susceptibility to Botrytis cinerea, suggesting that RH11, RH37, ANN1 and ANN2 positively regulate plant immunity against B. cinerea.
Long noncoding RNA UCA1 has emerged as a novel regulator in cancer initiation and progression of various cancers. However, function and underlying mechanism of UCA1 in the progression of gastric ...cancer (GC) remain unclear. In the present study, we report that UCA1 expressed highly in GC tissues and GC cells, which was partly induced by SP1. UCA1 promoted GC cell proliferation and G1/S transition in vitro and in vivo. Moreover, UCA1 exerted its function through interacting with EZH2, promoting direct interaction with cyclin D1 promoter to activate the translation of cyclin D1. Furthermore, AKT/GSK-3B/cyclin D1 axis was activated to upregulate cyclin D1 due to overexpression of UCA1. In addition, EZH2 and phosphorylated AKT induced by UCA1 could impact each other to form a positive feedback to promote cyclin D1 expression. This study demonstrated that UCA1 as a critical regulator involved in GC proliferation and cell cycle progression by promoting cyclin D1 expression, which indicates that it may be clinically a potential therapeutic target in GC.
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