Single-cell RNA-seq data analysis using graph autoencoders and graph attention networks

With the development of high-throughput sequencing technology, the scale of single-cell RNA sequencing (scRNA-seq) data has surged. Its data are typically high-dimensional, with high dropout noise and high sparsity. Therefore, gene imputation and cell clustering analysis of scRNA-seq data is increasingly important. Statistical or traditional machine learning methods are inefficient, and improved accuracy is needed. The methods based on deep learning cannot directly process non-Euclidean spatial data, such as cell diagrams. In this study, we developed scGAEGAT, a multi-modal model with graph autoencoders and graph attention networks for scRNA-seq analysis based on graph neural networks. Cosine similarity, median L1 distance, and root-mean-squared error were used to measure the gene imputation performance of different methods for comparison with scGAEGAT. Furthermore, adjusted mutual information, normalized mutual information, completeness score, and Silhouette coefficient score were used to measure the cell clustering performance of different methods for comparison with scGAEGAT. Experimental results demonstrated promising performance of the scGAEGAT model in gene imputation and cell clustering prediction on four scRNA-seq data sets with gold-standard cell labels

Construction and Properties of Polyvinyl Alcohol/Chitosan Electrospun Film Loaded with Catechins

In order to develop a new bio-based food packaging material and improve the bioavailability of natural phenolic compounds, an electrospinning film loaded with Catechin was prepared by electrospinning using catechin (CT), polyvinyl alcohol (PVA) and chitosan (CS) as substrates. The microstructure and diameter distribution of the electrospun films were analyzed by scanning electron microscopy. The interaction between CT and film forming substrate was studied by Fourier infrared spectroscopy, X-ray diffraction and thermal analysis. The effects of CT addition on the physical and chemical properties of the electrospun film were investigated by taking the mechanical properties, gas permeability and antioxidant activity of the film as parameters. Finally, the preservation effect of electrospun film was analyzed by sensory evaluation, water loss rate and titrable acid content. The results showed that the intermolecular hydrogen bond was formed between CT and CS, and the hydrophobic property was improved. When the concentration of CT was 0.8%, the comprehensive performance of the electrospun film was the best. It had good morphology, dense structure and good thermal stability. At this point, the tensile strength and elongation at break reached the maximum, which were 12.89 MPa and 62.45% respectively. The water solubility, water vapor transmittance and CO2 transmittance were the lowest, which were 29.51%, 0.1532 g·mm·(m2·h·kPa)−1 and 5.9 g·(m2·h)−1, respectively. Besides, the scavenging rate of DPPH free radical also reached the maximum value, which was 71.02%. Moreover, the electrospun membrane had sustained release effect. When the CT concentration was 0.8%, its cumulative release rate was the highest. The preservation research results showed that the electrospun film could effectively delay the deterioration of strawberry, and the electrospun film with 0.8% CT concentration had the best preservation effect. In conclusion, the electrospun film with 0.8% CT concentration had the best comprehensive performance, and it had certain antioxidation and fresh-keeping ability

Intelligent medication manager: developing and implementing a mobile application based on WeChat

Background: Time and space constraints have often hindered the provision of optimal pharmaceutical care, limiting medication therapy management. Social media tools have gained significant popularity in the field of pharmaceutical care. This study aimed to develop a WeChat-based intelligent medication manager platform that facilitates online pharmaceutical care and encourages self-management.Methods: We developed a WeChat-based Internet pharmacy service platform called Xiang Medicine Guidance (XMG). Through the analysis of surveys and user access data, we evaluated the demand and utilization of the XMG platform and assessed patients’ satisfaction with its services. Patients’ adherence before and after the XMG platform intervention was also investigated.Results: The XMG platform was launched in November 2022, offering medication guidance, reminders, and consultation services through the WeChat mini-program. By the end of April 2023, the platform had attracted 141.2 thousand users, accumulating 571.0 thousand visits. Moreover, 1,183 clients sought online medication consultations during this period. Six months after the launch of XMG, an impressive 91.02% of users expressed their satisfaction with the platform. The medication reminders and consultations provided by XMG significantly contributed to medication adherence, with 56.02% of users categorized as having good adherence, better than the previous 47.26%.Conclusion: Through its services and features, XMG empowers patients to better manage their medications, seek professional advice, and adhere to their prescribed treatment plans. XMG has the potential to positively impact public health on a broader scale

Impulsive Synchronization of Multilinks Delayed Coupled Complex Networks with Perturb Effects

This paper investigates impulsive synchronization of multilinks delayed coupled complex networks with perturb effects. Based on the comparison theory of impulsive differential system, a novel synchronization criterion is derived and an impulsive controller is designed simultaneously. Finally, numerical simulations demonstrate the effectiveness of the proposed synchronization criteria

Gelsemium elegans Poisoning: A Case with 8 Months of Follow-up and Review of the Literature

BackgroundGelsemium elegans (G. elegans) is a toxic plant indigenous to Southeast Asia. It is highly poisonous due to its strong respiratory depressive effect. However, G. elegans poisoning cases have not been summarized comprehensively and are rarely reported in English journals. Furthermore, none of the present reports present prognosis in detail.Case presentationA 26-year-old female was found comatose at home and brought to the hospital with deep coma, hypoxia, and acidosis. After mechanical ventilation for hours, the patient recovered from coma with sequelae of impaired short-term memory, disorientation, and childish behaviors. Brain magnetic resonance imaging (MRI) showed bilateral hippocampus and basal ganglia damage due to hypoxia. During 8 months of follow-up, both her symptoms and brain MRI scan improved significantly.ConclusionG. elegans is highly toxic. Although patients may die within 30 min due to its strong respiratory depressive effect, they can survive with timely respiratory support and enjoy gradual improvement without delayed postanoxic encephalopathy

Carrier-envelope phase measurement from half-cycle high harmonics

We present a method to distinguish the high harmonics generated in individual half-cycle of the driving laser pulse by mixing a weak ultraviolet pulse, enabling one to observe the cutoff of each half-cycle harmonic. We show that the detail information of the driving laser pulse, including the laser intensity, pulse duration and carrier-envelope phase, can be {\it in situ} retrieved from the harmonic spectrogram. In addition, our results show that this method also distinguishes the half-cycle high harmonics for a pulse longer than 10 fs, suggesting a potential to extend the CEP measurement to the multi-cycle regime.Comment: 6 figures, 3 movie

Construction and validation of a prognostic model for hepatocellular carcinoma: Inflammatory ferroptosis and mitochondrial metabolism indicate a poor prognosis

BackgroundAn increasing number of innovations have been discovered for treating hepatocellular carcinoma (HCC or commonly called HCC) therapy, Ferroptosis and mitochondrial metabolism are essential mechanisms of cell death. These pathways may act as functional molecular biomarkers that could have important clinical significance for determining individual differences and the prognosis of HCC. The aim of this study was to construct a stable and reliable comprehensive model of genetic features and clinical factors associated with HCC prognosis.MethodsIn this study, we used RNA-sequencing (fragments per kilobase of exon model per million reads mapped value) data from the Cancer Genome Atlas (TCGA) database to establish a prognostic model. We enrolled 104 patients for further validation. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes enrichment analyses (KEGG) analysis were used for the functional study of differentially expressed genes. Pan-cancer analysis was performed to evaluate the function of the Differentially Expressed Genes (DEGs). Thirteen genes were identified by univariate and least absolute contraction and selection operation (LASSO) Cox regression analysis. The prognostic model was visualized using a nomogram.ResultsWe found that eight genes, namely EZH2, GRPEL2, PIGU, PPM1G, SF3B4, TUBG1, TXNRD1 and NDRG1, were hub genes for HCC and differentially expressed in most types of cancer. EZH2, GRPEL2 and NDRG1 may indicate a poor prognosis of HCC as verified by tissue samples. Furthermore, a gene set variation analysis algorithm was created to analyze the relationship between these eight genes and oxidative phosphorylation, mitophagy, and FeS-containing proteins, and it showed that ferroptosis might affect inflammatory-related pathways in HCC.ConclusionEZH2, GRPEL2, NDRG1, and the clinical factor of tumor size, were included in a nomogram for visualizing a prognostic model of HCC. This nomogram based on a functional study and verification by clinical samples, shows a reliable performance of patients with HCC

Pathological Comparisons of the Hippocampal Changes in the Transient and Permanent Middle Cerebral Artery Occlusion Rat Models

© Copyright © 2019 Shah, Li, Kury, Zeb, Khatoon, Liu, Yang, Liu, Yao, Khan, Koh, Jiang and Li. Ischemic strokes are categorized by permanent or transient obstruction of blood flow, which impedes delivery of oxygen and essential nutrients to brain. In the last decade, the therapeutic window for tPA has increased from 3 to 5–6 h, and a new technique, involving the mechanical removal of the clot (endovascular thrombectomy) to allow reperfusion of the injured area, is being used more often. This last therapeutic approach can be done until 24 h after stroke onset. Due to this fact, more acute ischemic stroke patients are now being recanalized, and so tMCAO is probably the “best” model to address these patients that have a potential good outcome in terms of survival and functional recovery. However, permanent occlusion patients are also important, not only to increase survival rate but also to improve functional outcomes, although these are more difficult to achieve. So, both models are important, and which target different stroke patients in the clinical scenario. Hippocampus has a vital role in memory and cognition, is prone to ischemic induced neurodegeneration. This study was designed to delineate the molecular, pathological, and neurological changes in rat models of t-MCAO, permanent MCAO (pMCAO), and pMCAO with diabetic conditions in hippocampal tissue. Our results showed that these three models showed distinct discrepancies at numerous pathological process, including key signaling molecules involved in neuronal apoptosis, glutamate induced excitotoxicity, neuroinflammation, oxidative stress, and neurotrophic changes. Our result suggests that the two commonly used MCAO models exhibited tremendous differences in terms of neuronal cell loss, glutamate excitotoxic related signaling, synaptic transmission markers, neuron inflammatory and oxidative stress molecules. These differences may reflect the variations in different models, which may provide valuable information for mechanistic and therapeutic inconsistences as experienced in both preclinical models and clinical trials

Hypidone Hydrochloride (YL-0919) Produces a Fast-Onset Reversal of the Behavioral and Synaptic Deficits Caused by Chronic Stress Exposure

Our previous study showed that hypidone hydrochloride (YL-0919), a partial serotonin 1A (5-HT1A) receptor agonist and 5-HT reuptake inhibitor, exerts a significant antidepressant effect in various animal models. The aim of the present study was to further investigate the underlying mechanisms and whether it could act as a fast-onset antidepressant. In the current study, depressive-like behavior was induced in rats by a chronic unpredictable stress (CUS) model and assessed with the Sucrose Preference Test (SPT). Treatment with YL-0919 (2.5 mg/kg, i.g.), but not with fluoxetine (Flx; 10 mg/kg, i.g.), caused a fast improvement in the SPT scores. In CUS-exposed rats, YL-0919 treatment for 5 days decreased the immobility time in a forced swimming test (FST), and a 10-day treatment decreased the latency to feed in a Novelty-Suppressed Feeding Test (NSFT). In addition to the behavioral tests, the effects of YL-0919 on synaptic protein expression were also evaluated. Western blotting showed that YL-0919 significantly enhanced the expression levels of synaptic proteins such as synapsin I, postsynaptic density protein 95 (PSD95), phosphorylated mammalian targeting of rapamycin (pmTOR) and brain-derived neurotrophic factor (BDNF) in the hippocampus. To determine how the mTOR signaling is involved in the fast-onset antidepressant-like effects of YL-0919, the mTOR-specific inhibitor rapamycin was administered intracerebroventricularly (i.c.v.) together with the YL-0919 treatment. The observed changes in behavioral tests and protein expression could be reversed by rapamycin treatment. This suggests that the fast-onset antidepressant effects of YL-0919 were partially caused by changes in synaptogenesis mediated by activation of mTOR pathways. Our data suggest that YL-0919 may be a powerful/effective antidepressant with fast-onset

Melatonin Protects MCAO-Induced Neuronal Loss via NR2A Mediated Prosurvival Pathways

Stroke is the significant cause of human mortality and sufferings depending upon race and demographic location. Melatonin is a potent antioxidant that exerts protective effects in differential experimental stroke models. Several mechanisms have been previously suggested for the neuroprotective effects of melatonin in ischemic brain injury. The aim of this study is to investigate whether melatonin treatment affects the glutamate N-methyl-D-aspartate (NMDA) and alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionic acid (AMPA) receptor signaling in cerebral cortex and striatum 24 h after permanent middle cerebral artery occlusion (MCAO). Melatonin (5 mg/kg) attenuated ischemia-induced down regulation of NMDA receptor 2 (NR2a), postsynaptic density-95 (PSD95) and increases NR2a/PSD95 complex association, which further activates the pro-survival PI3K/Akt/GSK3β pathway with mitigated collapsin response mediator protein 2 (CRMP2) phosphorylation. Furthermore, melatonin increases the expression of γ-enolase, a neurotrophic factor in ischemic cortex and striatum, and preserve the expression of presynaptic (synaptophysin and SNAP25) and postsynaptic (p-GluR1845) protein. Our study demonstrated a novel neuroprotective mechanism for melatonin in ischemic brain injury which could be a promising neuroprotective agent for the treatment of ischemic stroke