High-performance time-series quantitative retrieval from satellite images on a GPU cluster

The quality and accuracy of remote sensing instruments continue to increase, allowing geoscientists to perform various quantitative retrieval applications to observe the geophysical variables of land, atmosphere, ocean, etc. The explosive growth of time-series remote sensing (RS) data over large-scales poses great challenges on managing, processing, and interpreting RS ‘‘Big Data.’’ To explore these time-series RS data efficiently, in this paper, we design and implement a high-performance framework to address the time-consuming time-series quantitative retrieval issue on a graphics processing unit cluster, taking the aerosol optical depth (AOD) retrieval from satellite images as a study case. The presented framework exploits the multilevel parallelism for time-series quantitative RS retrieval to promote efficiency. At the coarse-grained level of parallelism, the AOD time-series retrieval is represented as multidirected acyclic graph workflows and scheduled based on a list-based heuristic algorithm, heterogeneous earliest finish time, taking the idle slot and priorities of retrieval jobs into account. At the fine-grained level, the parallel strategies for the major remote sensing image processing algorithms divided into three categories, i.e., the point or pixel-based operations, the local operations, and the global or irregular operations have been summarized. The parallel framework was implemented with message passing interface and compute unified device architecture, and experimental results with the AOD retrieval case verify the effectiveness of the presented framework.N/

High-throughput Sequencing Analysis of Diversity and Spatial Heterogeneity of Fungal Community in Pit Muds of Different Ages for Baijiu Production

The fungal community structure, the relationship between fungal flora and physicochemical factors, and the prediction of fungal function in pit muds from different spatial positions of 10- and 50-year-old cellars at Jinhui liquor Co. Ltd. were studied by using Illumina NovaSeq high-throughput sequencing, redundancy analysis and Fungi Functional Guild (FUNGuild). The results showed that the fungal diversity and richness of the 10-year-old pit mud decreased with increasing depth; the fungal diversity of the 50-year-old pit mud showed an overall increasing trend, while the fungal richness initially decrease and then increased. Moreover, for the 10-year-old pit, the fungal diversity and richness of the upper layer of the pit wall were significantly higher than those of the other positions (P < 0.05), while for the 50-year-old cellar, the fungal diversity and richness of the bottom layer were significantly higher than those of the other locations (P < 0.05). The fungal diversity and richness were significantly higher in the wall of the 10-year-old cellar than the 50-year-old cellar (P < 0.05), but were significantly higher in the bottom of the 50-year-old cellar than the 10-year-old cellar (P < 0.05). A total of 21 fungal phyla and 520 genera were detected in all pit mud samples, the relative abundance of four dominant phyla (Ascomycota, Basidiomycota, Mortierellomycota and Rozellomycota) and most dominant genera such as Aspergillus and Kazachstania showed significant changes among pit ages and spatial locations (P < 0.05). Fusarium, Aspergillus, Saccharomyces and Monascus were positively correlated with the contents of water, humus, K+ and Ca2+, while Cladosporium and Vishniacozyma were positively correlated with pH. Seven nutritional modes of fungi were observed, mainly including saprophytic and pathological-saprophytic-symbiotic nutritional modes, and four single and seven mixed functional groups were determined. This study provides a theoretical basis for clarifying the structure and spatial distribution of fungal community in Jinhui Baijiu pit mud

PA-MSHA improves prognosis of patients undergoing radical cystectomy: a retrospective cohort study using inverse probability of treatment weighting

ObjectiveTo observe the effect of Pseudomonas aeruginosa mannose-sensitive hemagglutinin (PA-MSHA) on the prognosis and the incidence of lymphatic leakage in patients undergoing radical cystectomy (RC).MethodA total of 129 patients who underwent RC in Lanzhou University Second Hospital from 2013 to 2022 were enrolled in this study. They were divided into 43 patients treated with PA-MSHA and 86 patients in the control group. Inverse probability of treatment weighting (IPTW) was applied to reduce potential selection bias. Kaplan-Meier method and Cox regression analysis were used to analyze the effect of PA-MSHA on the survival of patients and the incidence of postoperative lymphatic leakage.ResultsThe PA-MSHA group exhibited improved overall survival (OS) and cancer-specific survival (CSS) rates compared to the control group. The 3-year and 5-year overall survival (OS) rates for the PA-MSHA group were 69.1% and 53.2%, respectively, compared to 55.6% and 45.3% for the control group (Log-rank=3.218, P=0.072). The 3-year and 5-year cancer-specific survival (CSS) rates for the PA-MSHA group were 73.3% and 56.5%, respectively, compared to 58.0% and 47.3% for the control group (Log-rank=3.218, P=0.072). Additionally, the 3-year and 5-year progression-free survival (PFS) rates for the PA-MSHA group were 74.4% and 56.8%, respectively, compared to 57.1% and 52.2% for the control group (Log-rank=2.016, P=0.156). Multivariate Cox regression analysis indicates that lymph node metastasis and distant metastasis are poor prognostic factors for patients, while the use of PA-MSHA can improve patients’ OS (HR: 0.547, 95%CI: 0.304–0.983, P=0.044), PFS (HR: 0.469, 95%CI: 0.229–0.959, P=0.038) and CSS (HR: 0.484, 95%CI: 0.257–0.908, P=0.024). The same trend was observed in the cohort After IPTW adjustment. Although there was no significant difference in the incidence of postoperative lymphatic leakage [18.6% (8/35) vs. 15.1% (84.9%), P=0.613] and pelvic drainage volume [470 (440) ml vs. 462.5 (430) ml, P=0.814] between PA-MSHA group and control group, PA-MSHA could shorten the median retention time of drainage tube (7.0 d vs 9.0 d) (P=0.021).ConclusionPA-MSHA may improve radical cystectomy in patients with OS, PFS, and CSS, shorten the pelvic drainage tube retention time

Negative Regulation of Interferon-β Gene Expression during Acute and Persistent Virus Infections

The production of type I interferons (IFNs) in response to viral infections is critical for antiviral immunity. However, IFN production is transient, and continued expression can lead to inflammatory or autoimmune diseases. Thus, understanding the mechanisms underlying the negative regulation of IFN expression could lead to the development of novel therapeutic approaches to the treatment of these diseases. We report that the transcription factor IRF3 plays a central role in the negative regulation of interferon-β (IFNβ) expression during both acute and persistent (chronic) virus infections. We show that the degradation of IRF3 during acute infections, rather than the activation of transcriptional repressors, leads to the down regulation of IFNβ expression. We also show that the block to IFNβ expression in mouse embryonic fibroblasts that are persistently infected with Sendai virus (SeV) correlates with the absence of transcriptionally active IRF3. Remarkably, ongoing protein synthesis and viral replication are required to maintain repression of the IFNβ gene in persistently infected cells, as the gene can be activated by the protein synthesis inhibitor cycloheximide, or by the antiviral drug ribavirin. Finally, we show that the SeV V protein inhibits IRF3 activity in persistently infected cells. Thus, in conjunction with the known interference with STAT1 by the SeV C protein, both IFN activation and its signaling pathways are blocked in persistently infected cells. We conclude that the transcription factor IRF3 is targeted for turnover and inactivation through distinct mechanisms from both the host cells and virus, leading to the inhibition of IFNβ gene expression during acute and persistent viral infections. These observations show that IRF3 plays a critical role, not only in the activation of the IFNβ gene, but also in the controlling the duration of its expression. (284 words

Prediction of overall survival for patients with metastatic castration-resistant prostate cancer : development of a prognostic model through a crowdsourced challenge with open clinical trial data

Background Improvements to prognostic models in metastatic castration-resistant prostate cancer have the potential to augment clinical trial design and guide treatment strategies. In partnership with Project Data Sphere, a not-for-profit initiative allowing data from cancer clinical trials to be shared broadly with researchers, we designed an open-data, crowdsourced, DREAM (Dialogue for Reverse Engineering Assessments and Methods) challenge to not only identify a better prognostic model for prediction of survival in patients with metastatic castration-resistant prostate cancer but also engage a community of international data scientists to study this disease. Methods Data from the comparator arms of four phase 3 clinical trials in first-line metastatic castration-resistant prostate cancer were obtained from Project Data Sphere, comprising 476 patients treated with docetaxel and prednisone from the ASCENT2 trial, 526 patients treated with docetaxel, prednisone, and placebo in the MAINSAIL trial, 598 patients treated with docetaxel, prednisone or prednisolone, and placebo in the VENICE trial, and 470 patients treated with docetaxel and placebo in the ENTHUSE 33 trial. Datasets consisting of more than 150 clinical variables were curated centrally, including demographics, laboratory values, medical history, lesion sites, and previous treatments. Data from ASCENT2, MAINSAIL, and VENICE were released publicly to be used as training data to predict the outcome of interest-namely, overall survival. Clinical data were also released for ENTHUSE 33, but data for outcome variables (overall survival and event status) were hidden from the challenge participants so that ENTHUSE 33 could be used for independent validation. Methods were evaluated using the integrated time-dependent area under the curve (iAUC). The reference model, based on eight clinical variables and a penalised Cox proportional-hazards model, was used to compare method performance. Further validation was done using data from a fifth trial-ENTHUSE M1-in which 266 patients with metastatic castration-resistant prostate cancer were treated with placebo alone. Findings 50 independent methods were developed to predict overall survival and were evaluated through the DREAM challenge. The top performer was based on an ensemble of penalised Cox regression models (ePCR), which uniquely identified predictive interaction effects with immune biomarkers and markers of hepatic and renal function. Overall, ePCR outperformed all other methods (iAUC 0.791; Bayes factor >5) and surpassed the reference model (iAUC 0.743; Bayes factor >20). Both the ePCR model and reference models stratified patients in the ENTHUSE 33 trial into high-risk and low-risk groups with significantly different overall survival (ePCR: hazard ratio 3.32, 95% CI 2.39-4.62, p Interpretation Novel prognostic factors were delineated, and the assessment of 50 methods developed by independent international teams establishes a benchmark for development of methods in the future. The results of this effort show that data-sharing, when combined with a crowdsourced challenge, is a robust and powerful framework to develop new prognostic models in advanced prostate cancer.Peer reviewe

Régularisation spatiale de représentations distribuées de mots

Stimulée par l’usage intensif des téléphones mobiles, l’exploitation conjointe des don-nées textuelles et des données spatiales présentes dans les objets spatio-textuels (p. ex. tweets)est devenue la pierre angulaire à de nombreuses applications comme la recherche de lieux d’attraction. Du point de vue scientifique, ces tâches reposent de façon critique sur la représentation d’objets spatiaux et la définition de fonctions d’appariement entre ces objets. Dans cet article,nous nous intéressons au problème de représentation de ces objets. Plus spécifiquement, confortés par le succès des représentations distribuées basées sur les approches neuronales, nous proposons de régulariser les représentations distribuées de mots (c.-à-d. plongements lexicaux ou word embeddings), pouvant être combinées pour construire des représentations d’objets,grâce à leurs répartitions spatiales. L’objectif sous-jacent est de révéler d’éventuelles relations sémantiques locales entre mots ainsi que la multiplicité des sens d’un même mot. Les expérimentations basées sur une tâche de recherche d’information qui consiste à retourner le lieu physique faisant l’objet (sujet) d’un géo-texte montrent que l’intégration notre méthode de régularisation spatiale de représentations distribuées de mots dans un modèle d’appariement de base permet d’obtenir des améliorations significatives par rapport aux modèles de référence

Predicting Milling Stability Based on Composite Cotes-Based and Simpson’s 3/8-Based Methods

Avoiding chatter in milling processes is critical for obtaining machined parts with high surface quality. In this paper, we propose two methods for predicting the milling stability based on the composite Cotes and Simpson’s 3/8 formulas. First, a time-delay differential equation is established, wherein the regenerative effects are considered. Subsequently, it is discretized into a series of integral equations. Based on these integral equations, a transition matrix is determined using the composite Cotes formula. Finally, the system stability is analyzed according to the Floquet theory to obtain the milling stability lobe diagrams. The simulation results demonstrate that for the single degree of freedom (single-DOF) model, the convergence speed of the composite Cotes-based method is higher than that of the semi-discrete method and the Simpson’s equation method. In addition, the composite Cotes-based method demonstrates high computational efficiency. Moreover, to further improve the convergence speed, a second method based on the Simpson’s 3/8 formula is proposed. The simulation results show that the Simpson’s 3/8-based method has the fastest convergence speed when the radial immersion ratio is large; for the two degrees of freedom (two-DOF) model, it performs better in terms of calculation accuracy and efficiency

Friction and Wear Mechanism Analysis of Polymer Flexible Cable Using a High Natural Frequency Piezoelectric Sensor

The friction and wear of flexible cables are the main factors that cause electrical breakdown and insulation aging, and they greatly reduce the reliability and safety of robots. In order to enhance the reliability and safety of the robot, it is of great necessity to investigate the friction and wear mechanisms of the flexible cable. In this research, the friction and wear mechanisms have been discussed. The effects of relative speed, ambient temperature, and positive pressure on the flexible cables are considered by an orthogonal frictional movement. The cable friction force has been measured by a piezoelectric sensor with high natural frequency characteristics. The relations among friction and different factors affecting friction have also been discussed. The results show that the relative speed and the ambient temperature are the main factors affecting the friction and wear of the cable; the main form of flexible cable wear is mechanical-force chemical friction and wear. Those discoveries will greatly deepen the understanding of the friction and wear mechanisms of flexible cables, and will be beneficial to robot cable-reliability design

A reverse order-based QoS constraint correction approach for optimizing execution path for service composition

In service oriented computing systems, a business process can be exposed as a composite service which consists of a set of logically connected sub-services. For each service in the composition, many service providers can offer the same function but may different QoS. In the general service composition, when a user submits a request, overall QoS constraints called end-to-end QoS composition's requirements, for example, time should be less than one hour, and cost should be less than 60$, can be transmitted at the same time. As such, how to effectively coordinate individual QoS constraints for single service to achieve the best overall QoS benefits without violating such end-to-end QoS constraint requirements has been a critical issue. With an increasing number of abstract services in a service composition, the possibility of execution path by selecting different service providers for each abstract service blows up exponentially. Therefore, service selection problem for service composition is a computational-hard problem, which can be regarded as a Multiple choice Multiple dimension Knapsack Problem (MMKP) that has been proved np-hard [1, 2, 3]. Recently, a lot of approaches such as graph-based techniques[4], runtime adaptation-based techniques[5], Service Level Agreement(SLA), negotiation and auction based techniques[6], Integer Linear Programming (ILP) based techniques[7] have been proposed to resolve overall QoS constraints for optimizing execution path in a service composition. No matter what the merits and the importance current existing methods have, they rely on directly judging constraint conditions to detect multiple paths for picking out a critical execution path, which easily produces a high-time complexity and even an unsatisfactory result in comparison to the best path. As such, the issue on resolving overall QoS constraints to achieve an optimal execution path has not yet been well addressed