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VirSorter2: a new multi-classifier, expert-guided method of find different DNA and also RNA viruses.
However, the average computation speed of ACNS was 6, 4, and 35 times faster than SRCNN, FSRCNN, and DRCN, respectively under the computer setup used with the actual average computation time of 0.15 s per [Formula see text].
ACNS achieved comparable PSNR, SSIM, and IFC results to SRCNN, FSRCNN, and DRCN. However, the average computation speed of ACNS was 6, 4, and 35 times faster than SRCNN, FSRCNN, and DRCN, respectively under the computer setup used with the actual average computation time of 0.15 s per [Formula see text].miR-940 is a microRNA located on chromosome 16p13.3, which has varying degrees of expression imbalance in many diseases. It binds to the 3' untranslated region (UTR) and affects the transcription or post-transcriptional regulation of target protein-coding genes. For a diversity of cellular processes, including cell proliferation, migration, invasion, apoptosis, epithelial-to-mesenchymal transition (EMT), cell cycle, and osteogenic differentiation, miR-940 can affect them not only by regulating protein-coding genes but also long non-coding RNAs (lncRNAs) and circular RNAs (circRNAs) in pathways. Intriguingly, miR-940 participates in four pathways that affect cancer development, including the Wnt/β-catenin pathway, mitogen-activated protein kinase (MAPK) pathway, PD-1 pathway, and phosphatidylinositol 3-kinase (PI3K)-Akt pathway. Importantly, the expression of miR-940 is intimately correlated with the diagnosis and prognosis of tumor patients, as well as to the efficacy of tumor chemotherapy drugs. In conclusion, our main purpose is to outline the expression of miR-940 in various diseases and the molecular biological and cytological functions of target genes in order to reveal its potential diagnostic and prognostic value as well as its predictive value of drug efficacy.Hepatocellular carcinoma (HCC) belongs to the most frequent cancer with a high death rate worldwide. Thousands of long non-coding RNAs (lncRNAs) have been confirmed to influence the development of human cancers, including HCC. Nevertheless, the biological role of PRR34 antisense RNA 1 (PRR34-AS1) in HCC remains obscure. Here, we observed via quantitative real-time reverse transcriptase polymerase chain reaction (quantitative real-time RT-PCR) that PRR34-AS1 was highly expressed in HCC cells. Functional assays revealed that PRR34-AS1 promoted HCC cell proliferation, migration, invasion, and epithelial-mesenchymal transition (EMT) process in vitro and facilitated tumor growth in vivo. In addition, western blot analysis and TOP Flash/FOP Flash reporter assays verified that PRR34-AS1 stimulated Wnt/β-catenin pathway in HCC cells. Furthermore, RNA immunoprecipitation (RIP), RNA pull-down, and luciferase reporter assays uncovered that PRR34-AS1 sequestered microRNA-296-5p (miR-296-5p) to positively modulate E2F transcription factor 2 (E2F2) and SRY-box transcription factor 12 (SOX12) in HCC cells. Importantly, chromatin immunoprecipitation (ChIP) and luciferase reporter assays uncovered that E2F2 transcriptionally activated PRR34-AS1 in turn. Further, rescue experiments reflected that PRR34-AS1 affected HCC progression through targeting miR-296-5p/E2F2/SOX12/Wnt/β-catenin axis. Our findings found that PRR34-AS1 elicited oncogenic functions in HCC, which indicated that PRR34-AS1 might be a novel therapeutic target for HCC.A number of studies indicate that circular RNAs (circRNAs) play paramount roles in regulating the biological behavior of glioblastoma multiforme (GBM). In this study, we investigated the underlying mechanism of circMELK in GBM. Real-time PCRs were used to examine the expression of circMELK in glioma tissues and normal brain tissues (NBTs). Localization of circMELK in GBM cells was estimated by fluorescence in situ hybridization (FISH). Transwell migration and three-dimensional invasion assays were performed to examine glioma cell migration and invasion in vitro. Spheroid formation, clonogenicity, and cell viability assays were implemented to test the stemness of glioma stem cells (GSCs). The functions of circMELK in vivo were investigated in a xenograft nude-mouse model. We have proved that circMELK functions as a sponge for tumor suppressor microRNA-593 (miR-593) by RNA immunoprecipitation and circRNA precipitation assays, which targets the oncogenic gene Eph receptor B2 (EphB2). Dual-luciferase reporter assays were adopted to estimate the interactions between miR-593 and circMELK or EphB2. We demonstrated that circMELK was upregulated in GBM, acting as an oncogene and regulating GBM mesenchymal transition and GSC maintenance via sponging of miR-593. Furthermore, we found that EphB2 was involved in circMELK/miR-593 axis-induced GBM tumorigenesis. This function opens the opportunity for the development of a novel therapeutic target for the treatment of gliomas.The outbreak of the coronavirus disease (COVID-19) pandemic has become a worldwide health catastrophe instigated by Severe Acute Respiratory Syndrome Coronavirus-2 (SARS-CoV-2). Countries are battling to slow the spread of this virus by testing and treating patients, along with other measures such as prohibiting large gatherings, maintaining social distance, and frequent, thorough hand washing, as no vaccines or medicines are available that could effectively treat infected people for different types of SARS-CoV-2 variants. However, the testing procedure to detect this virus is lengthy. This study proposes a surface plasmon resonance-based biosensor for fast detection of SARS-CoV-2. The sensor employs a multilayered configuration consisting of TiO2-Ag-MoSe2 graphene with a BK7 prism. Antigen-antibody interaction was considered the principle for this virus detection. Immobilized CR3022 antibody molecules for detecting SARS-CoV-2 antigens (S-glycoprotein) are used for this sensor. It was found that the proposed sensor's sensitivity (194°/RIU), quality factor (54.0390 RIU-1), and detection accuracy (0.2702) outperformed those of other single and multilayered structures. This study could be used as a theoretical base and primary step in constructing an actual sensor.Collagen of type I (Col I) and type II (Col II) are critical for cartilage and connective tissues in the human body, and several diseases may alter their properties. Assessing the identification and quantification of fibrillar collagen without biomarkers is a challenge. Advancements in non-invasive polarization-resolved second-harmonic generation (PSHG) microscopy have provided a method for the non-destructive investigation of collagen molecular level properties. Here we explored an alternative polarization modulated approach, dual-LC PSHG, that is based on two liquid crystal devices (Liquid crystal polarization rotators, LPRs) operating simultaneously with a laser scanning SHG microscope. We demonstrated that this more accessible technology allows the quick and accurate generation of any desired linear and circular polarization state without any mechanical parts. This study demonstrates that this method can aid in improving the ability to quantify the characteristics of both types of collagen, including pitch angle, anisotropy, and circular dichroism analysis. Using this approach, we estimated the effective pitch angle for Col I and Col II to be 49.7° and 51.6°, respectively. The effective peptide pitch angle for Col II gel was first estimated and is similar to the value obtained for Col I gel in the previous studies. Additionally, the difference of the anisotropy parameter of both collagen type gels was assessed to be 0.293, which reflects the different type molecular fibril assembly. Further, our work suggests a potential method for monitoring and differentiating different collagen types in biological tissues, especially cartilage or connective tissue.Brain signal variability (BSV) has shown to be powerful in characterizing human brain development and neuropsychiatric disorders. Multiscale entropy (MSE) is a novel method for quantifying the variability of brain signal, and helps elucidate complex dynamic pathological mechanisms in children with attention-deficit/hyperactivity disorder (ADHD). Here, multiple-channel resting-state functional near-infrared spectroscopy (fNIRS) imaging data were acquired from 42 children with ADHD and 41 healthy controls (HCs) and then BSV was calculated for each participant based on the MSE analysis. Compared with HCs, ADHD group exhibited reduced BSV in both high-order and primary brain functional networks, e.g., the default mode, frontoparietal, attention and visual networks. Intriguingly, the BSV aberrations negatively correlated with ADHD symptoms in the frontoparietal network and negatively correlated with reaction time variability in the frontoparietal, default mode, somatomotor and attention networks. This study demonstrates a wide alternation in the moment-to-moment variability of spontaneous brain signal in children with ADHD, and highlights the potential for using MSE metric as a disease biomarker.We report an automated differentiation model for classifying malignant tumor, fibro-adipose, and stroma in human breast tissues based on polarization-sensitive optical coherence tomography (PS-OCT). A total of 720 PS-OCT images from 72 sites of 41 patients with H&E histology-confirmed diagnoses as the gold standard were employed in this study. The differentiation model is trained by the features extracted from both one standard OCT-based metric (i.e., intensity) and four PS-OCT-based metrics (i.e., phase difference between two channels (PD), phase retardation (PR), local phase retardation (LPR), and degree of polarization uniformity (DOPU)). Further optimized by forward searching and validated by leave-one-site-out-cross-validation (LOSOCV) method, the best feature subset was acquired with the highest overall accuracy of 93.5% for the model. Furthermore, to show the superiority of our differentiation model based on PS-OCT images over standard OCT images, the best model trained by intensity-only features (usually obtained by standard OCT systems) was also obtained with an overall accuracy of 82.9%, demonstrating the significance of the polarization information in breast tissue differentiation. The high performance of our differentiation model suggests the potential of using PS-OCT for intraoperative human breast tissue differentiation during the surgical resection of breast cancer.We developed a simple and compact laser-scanning photoacoustic microscopy (PAM) for imaging large areas of subcutaneous microvasculature in vivo. The reflection-mode PAM not only retains the advantage of high scanning speed for optical scanning, but also offers an imaging field-of-view (FOV) up to 20 × 20 mm2, which is the largest FOV available in laser-scanning models so far. The lateral resolution of the PAM system was measured to be 17.5 µm. Image experiments on subcutaneous microvasculature in in vivo mouse ears and abdomen demonstrate the system's potential for fast and high-resolution imaging for injuries and diseases of large tissues and organs.The rupture of coronary atherosclerotic plaque (CAP) and the resulting intracoronary thrombosis account for most acute coronary syndromes. Thus, the early identification and risk assessment of CAP is crucial for timely medical intervention. In this study, we propose a quantitative and label-free method for human CAP identification using multiphoton microscopy (MPM) and three-dimensional (3D) image analysis techniques. By detecting the intrinsic MPM signals, the microstructures of collagen and elastin fibers within normal and CAP-lesioned human coronary artery walls were imaged. Using a 3D gray level co-occurrence matrix method and 3D weighted vector summation algorithm, quantitative indicators that characterize the spatial texture and orientation features of the fibers were extracted. We demonstrate that these indicators show superior accuracy and repeatability over 2D texture features in CAP discrimination. Furthermore, by combining the 3D microstructural indicators, a support vector machine model that classifies CAP from the normal arterial wall with an accuracy of >97% was established.
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