Outcome of chairside CAD/CAM ceramic restorations on endodontically treated posterior teeth: a prospective study.

OBJECTIVE: The aim of this study was to evaluate the outcome and risk factors for chairside CAD/CAM full cusp coverage restorations on endodontically treated posterior teeth after 3 years of follow-up. METHODS: A total of 245 endodontically treated posterior teeth of 224 patients were included and restored with CAD/CAM full cusp coverage all-ceramic restorations according to a standardized protocol. Patients were recalled after treatments 1 to 3 years and underwent clinical and radiological examinations. At recall, modified FDI criteria were used to determine treatment outcomes by 2 evaluators. Success was determined when FDI scores were 1-2, and failure was indicated when FDI scores were 5. Logistic regression analysis was performed to evaluate potential risk factors. RESULTS: A total of 183 patients presented at recall, and the clinical outcomes of 201 teeth were analyzed with a recall rate of 82.0% for teeth and 81.7% for patients after 1-3 years of follow-up.185 of 201 teeth were found to have FDI scores of 1-2, and the success rate was 92%. No teeth were extracted during the follow-up period. Fourteen failed cases with an FDI score of 5 presented restoration dislocation, fracture of restoration or/and tooth. Logistic regression analysis revealed that oral parafunction (OR 2.281, 95% CI 2.2 ~ 47.5, P value 0.01) was a risk factor for success rate. CONCLUSION: Chairside CAD/CAM all-ceramic full cusp coverage restoration was (could be) a promising alternative for restoring endodontically treated posterior teeth.

Next-generation sequencing technology as a powerful detection and semi-quantitative method for herpes simplex virus type 1 in pediatric encephalitis.

This case report presents a 1-year-old boy from China, with sudden onset of fever, convulsion, and sleepiness, screened for viral DNA in blood and cerebrospinal fluid (CSF) sample using next-generation sequencing (NGS) to diagnose herpes simplex virus type 1 (HSV-1) encephalitis, further validated by PCR. After acyclovir treatment, the patient's symptom disappeared and HSV-1 DNA unique reads decreased from 4290 to zero in CSF, and from 23 to zero in blood detected by NGS. The clinical presentation and outcome were consistent with the pathogenic diagnostic results of NGS. NGS of CSF samples can be used as a diagnostic assay for HSV-1 encephalitis and also might be a semi-quantitative method for evaluation of treatment effect.

LPI-CNNCP: Prediction of lncRNA-protein interactions by using convolutional neural network with the copy-padding trick.

Long noncoding RNAs (lncRNAs) play critical roles in many pathological and biological processes, such as post-transcription, cell differentiation and gene regulation. Increasingly more studies have shown that lncRNAs function through mainly interactions with specific RNA binding proteins (RBPs). However, experimental identification of potential lncRNA-protein interactions is costly and time-consuming. In this work, we propose a novel convolutional neural network-based method with the copy-padding trick (named LPI-CNNCP) to predict lncRNA-protein interactions. The copy-padding trick of the LPI-CNNCP convert the protein/RNA sequences with variable-length into the fixed-length sequences, thus enabling the construction of the CNN model. A high-order one-hot encoding is also applied to transform the protein/RNA sequences into image-like inputs for capturing the dependencies among amino acids (or nucleotides). In the end, these encoded protein/RNA sequences are feed into a CNN to predict the lncRNA-protein interactions. Compared with other state-of-the-art methods in 10-fold cross-validation (10CV) test, LPI-CNNCP shows the best performance. Results in the independent test demonstrate that our LPI-CNNCP can effectively predict the potential lncRNA-protein interactions. We also compared the copy-padding trick with two other existing tricks (i.e., zero-padding and cropping), and the results show that our copy-padding rick outperforms the zero-padding and cropping tricks on predicting lncRNA-protein interactions. The source code of LPI-CNNCP and the datasets used in this work are available at https://github.com/NWPU-903PR/LPI-CNNCP for academic users.

Prediction of the RBP binding sites on lncRNAs using the high-order nucleotide encoding convolutional neural network.

Long non-coding RNA (lncRNA) plays an important role in cells through the interaction with RNA-binding proteins (RBPs). Finding the RBPs binding sites on the lncRNA chains can help to understand the post-transcriptional regulatory mechanism, exploring the pathogenesis of cancers and possible roles in other diseases. Although many genome-wide RBP experimental techniques can identify the RNA-protein interactions and detect the binding sites on RNA chains, they are still time-consuming, labor-intensive and cost-heavy. Thus, many computational methods have been developed to predict the RBPs sites by integrating the RNA sequence, structure and domain specific features, etc. However, current approaches that focus on predicting the RBPs binding sites on RNA chains lack a consideration of the dependencies among nucleotides. In this work, we propose a higher-order nucleotide encoding convolutional neural network-based method (namely HOCNNLB) to predict the RBPs binding sites on lncRNA chains. HOCNNLB first employs a high-order one-hot encoding strategy to encode the lncRNA sequences by considering the dependence among nucleotides, then the encoded lncRNA sequences are fed into the convolutional neural network (CNN) to predict the RBP binding sites. We evaluate HOCNNLB on 31 experimental datasets of 12 lncRNA binding proteins. The average AUC of HOCNNLB achieves 0.953, which is 0.247, 0.175 higher than that of iDeepS and DeepBind, respectively. The average accuracy is 90.2%, which is 26.8%, 19.5% higher than that of iDeepS and DeepBind, respectively. These results demonstrate that HOCNNLB can reliably predict the RBP binding sites on lncRNA chains and outperforms the state-of-the-art methods. The source code of HOCNNLB and the datasets used in this work are available at https://github.com/NWPU-903PR/HOCNNLB for academic users.

The diagnostic value of metagenomic next-generation sequencing for identifying Streptococcus pneumoniae in paediatric bacterial meningitis.

BACKGROUND: There is currently no research on the diagnostic value of metagenomic next-generation sequencing (mNGS) for a single pathogens in CSF. The aim of this study was to analyse the value of mNGS for identifying Streptococcus pneumoniae (S. pneumoniae) in paediatric bacterial meningitis. METHODS: Bacterial meningitis (BM) cases from October 23, 2014, to December 31, 2016, and December 1, 2017, to July 31, 2018 at Beijing Children's Hospital were reviewed. Clinical features and pathogens were analysed. RESULTS: We diagnosed 135 patients with BM in this study. A total of 43 S. pneumoniae were identified by combination methods. 26/135 (19.3%) patients had positive results in S. pneumoniae by blood and/or cerebrospinal fluid (CSF) culture. Alere BinaxNow®Streptococcus pneumoniae Antigen test was positive in 35/135(25.9%) cases. 32/135 (23.7%) S. pneumoniae were identified by mNGS. Six CSF samples were identified as S. pneumoniae only by mNGS technology. Taking culture as the gold standard, the sensitivity and specificity of mNGS for diagnosing S. pneumoniae meningitis were 73.1 and 88.1%, respectively. The positive predictive value (PPV) and negative predictive value (NPV) of diagnosing S. pneumoniae meningitis by mNGS were 59.4 and 93.2%, respectively. When comparison between mNGS and combined tests (culture and Alere BinaxNow®Streptococcus pneumoniae Antigen test), the sensitivity and specificity of mNGS for S. pneumoniae identification were 70.3 and 93.9%, the PPV and NPV in the identification of S. pneumoniae by mNGS were 81.4 and 89.3%, respectively. The difference in number of unique reads of S. pneumoniaein from CSF sample (< 14 days onset) and CSF sample (> 14 days from onset) was statistically significant (170.5 VS. 13, P = 0.019). The difference in the collected time of CSF for culture and mNGS was statistically significant (4 days VS. 14 days, P < 0.001). CONCLUSIONS: mNGS has high sensitivity and specificity for S. pneumoniae identification. The pathogen load (number of unique reads) of S. pneumonia is related to the CSF collection time. mNGS was less affected than culture by the use of antibiotics before CSF collection.

SARM1 participates in axonal degeneration and mitochondrial dysfunction in prion disease.

Prion disease represents a group of fatal neurogenerative diseases in humans and animals that are associated with energy loss, axonal degeneration, and mitochondrial dysfunction. Axonal degeneration is an early hallmark of neurodegeneration and is triggered by SARM1. We found that depletion or dysfunctional mutation of SARM1 protected against NAD+ loss, axonal degeneration, and mitochondrial functional disorder induced by the neurotoxic peptide PrP106-126. NAD+ supplementation rescued prion-triggered axonal degeneration and mitochondrial dysfunction and SARM1 overexpression suppressed this protective effect. NAD+ supplementation in PrP106-126-incubated N2a cells, SARM1 depletion, and SARM1 dysfunctional mutation each blocked neuronal apoptosis and increased cell survival. Our results indicate that the axonal degeneration and mitochondrial dysfunction triggered by PrP106-126 are partially dependent on SARM1 NADase activity. This pathway has potential as a therapeutic target in the early stages of prion disease.

A review about the application of phonetic methods in deciding the jaws relation of complete denture.

Speech could be used, because it was a neuromuscular movement without teeth contact. The method was stable, however it was used more in vertical relation deciding. More study was needed in the horizontal relation deciding. This article was to explain why and how to use phonetic method to decide jaws relation, through literature review.

Diagnostic Testing Using Pterygomaxillary Notches and Retromolar Pads on Casts to Check Horizontal Jaw Relation.

OBJECTIVE: To verify horizontal jaw relations using anatomical marks on a cast and evaluate the efficiency and accuracy of the test on checking the horizontal relation. METHODS: A total of 200 patients with a loss of posterior occlusion were recruited. After casts were made and the horizontal jaw relation was recorded, the pterygomaxillary notch and retromolar pad were identified bilaterally on the maxillary and mandibular casts. On each cast, a vertical line was drawn to bisect the anatomical landmarks and the distance between the two vertical lines was measured. Using the result of the wax try-in appointment and the corresponding measurements, a diagnostic test was conducted. A receiver operating curve was created and the maximum horizontal distance between bisecting points that still obtained correct jaw relations was determined to be a criterion. The accuracy of the test to verify horizontal jaw relations was evaluated. RESULTS: The area under the curve of the receiver operating curve was 0.833 (P < 0.05). With a maximum Youden index, the d value threshold was 1.0 mm. Using 1.0 mm as a criterion to check the horizontal relation, the sensitivity of the test was 0.76 and the specificity was 0.93. The kappa value for different researchers was calculated to be 0.79 (P < 0.05). The intraexaminer 1 reliability gave a kappa value of 0.76 (P < 0.05), and intraexaminer 2 gave a value of 0.81 (P < 0.05). CONCLUSION: The test for verifying the accuracy of horizontal jaw relations is reliable. If horizontal distance is measured as greater than 1.0 mm at the jaw relation record appointment, the recorded horizontal jaw relationship may be wrong and need to be reexamined.

Effects of NaCl stress on stomatal traits, leaf gas exchange parameters, and biomass of two tomato cultivars.

To understand the mechanism underlying responses of stomatal traits, gas exchange parameters, and biomass of tomato plants to salt stress, two tomato cultivars (Shed and Alam) were treated by salt stress by adding NaCl (0.1 mol·L-1) to nutrition medium in environmental growth chambers for 90 days. Our results showed that salt stress substantially decreased the stomatal density, stomatal width, stomatal area, and stomatal area index of Shed by 32%, 45%, 25%, and 49%, respectively. The stomatal traits of Alam were not affected by NaCl treatment. The spatial scales of the regular stomatal distribution pattern of Shed and Alam were significantly decreased by 30% and 43%, and the nearest neighbor distance Lhat (d) of shed cultivar was increased by 20% under salt stress. NaCl stress resulted in marginal declines in the net photosynthetic rates (Pn), stomatal conductance (gs), transpiration rates (Tr) of both cultivars. The decrease of the photosynthetic rate of Shed under salt stress resulted from stomatal limitation, whereas the Pn of Alam was subjected to non-stomatal constraints. NaCl stress substantially decreased the seedling biomass of both cultivars, and the decline of belowground biomass was higher than that of aboveground biomass. Overall, our results suggested that the Alam cultivar is more salt-tolerant than Shed.