FERN: Leveraging Graph Attention Networks for Failure Evaluation and Robust Network Design

Robust network design, which aims to guarantee network availability under various failure scenarios while optimizing performance/cost objectives, has received significant attention. Existing approaches often rely on model-based mixed-integer optimization that is hard to scale or employ deep learning to solve specific engineering problems yet with limited generalizability. In this paper, we show that failure evaluation provides a common kernel to improve the tractability and scalability of existing solutions. By providing a neural network function approximation of this common kernel using graph attention networks, we develop a unified learning-based framework, FERN, for scalable Failure Evaluation and Robust Network design. FERN represents rich problem inputs as a graph and captures both local and global views by attentively performing feature extraction from the graph. It enables a broad range of robust network design problems, including robust network validation, network upgrade optimization, and fault-tolerant traffic engineering that are discussed in this paper, to be recasted with respect to the common kernel and thus computed efficiently using neural networks and over a small set of critical failure scenarios. Extensive experiments on real-world network topologies show that FERN can efficiently and accurately identify key failure scenarios for both OSPF and optimal routing scheme, and generalizes well to different topologies and input traffic patterns. It can speed up multiple robust network design problems by more than 80x, 200x, 10x, respectively with negligible performance gap

Discovery of the nest of the yellow jacket Vespula structor (Smith) (Hymenoptera, Vespidae) from China with description of its immature stages

Data on the nest structure, morphology of all stages and behaviour have contributed to the phylogenetic and taxonomic studies of social vespids. Two underground nests of Vespula structor (Hymenoptera, Vespidae, Vespinae) were discovered in China. For the first time, the morphology of all the stages, and the nests are described in detail and illustrated. It is additional evidence supporting the recent conclusion that synonymized Vespula gongshanensis with V. structor. The status of Vespula structor within both the genus Vespula and the vulgaris-group are briefly discussed

A Convex Optimization Model and Algorithm for Retinex

Retinex is a theory on simulating and explaining how human visual system perceives colors under different illumination conditions. The main contribution of this paper is to put forward a new convex optimization model for Retinex. Different from existing methods, the main idea is to rewrite a multiplicative form such that the illumination variable and the reflection variable are decoupled in spatial domain. The resulting objective function involves three terms including the Tikhonov regularization of the illumination component, the total variation regularization of the reciprocal of the reflection component, and the data-fitting term among the input image, the illumination component, and the reciprocal of the reflection component. We develop an alternating direction method of multipliers (ADMM) to solve the convex optimization model. Numerical experiments demonstrate the advantages of the proposed model which can decompose an image into the illumination and the reflection components

novoPathFinder: a webserver of designing novel-pathway with integrating GEM-model

To increase the number of value-added chemicals that can be produced by metabolic engineering and synthetic biology, constructing metabolic space with novel reactions/pathways is crucial. However, with the large number of reactions that existed in the metabolic space and complicated metabolisms within hosts, identifying novel pathways linking two molecules or heterologous pathways when engineering a host to produce a target molecule is an arduous task. Hence, we built a user-friendly web server, novoPathFinder, which has several features: (i) enumerate novel pathways between two specified molecules without considering hosts; (ii) construct heterologous pathways with known or putative reactions for producing target molecule within Escherichia coli or yeast without giving precursor; (iii) estimate novel pathways with considering several categories, including enzyme promiscuity, Synthetic Complex Score (SCScore) and LD50 of intermediates, overall stoichiometric conversions, pathway length, theoretical yields and thermodynamic feasibility. According to the results, novoPathFinder is more capable to recover experimentally validated pathways when comparing other rule-based web server tools. Besides, more efficient pathways with novel reactions could also be retrieved for further experimental exploration. novoPathFinder is available at http://design.rxnfinder.org/novopathfinder/

Redox memristors with volatile threshold switching behavior for neuromorphic computing

The spiking neural network (SNN), closely inspired by the human brain, is one of the most powerful platforms to enable highly efficient, low cost, and robust neuromorphic computations in hardware using traditional or emerging electron devices within an integrated system. In the hardware implementation, the building of artificial spiking neurons is fundamental for constructing the whole system. However, with the slowing down of Moore’s Law, the traditional complementary metal-oxide-semiconductor (CMOS) technology is gradually fading and is unable to meet the growing needs of neuromorphic computing. Besides, the existing artificial neuron circuits are complex owing to the limited bio-plausibility of CMOS devices. Memristors with volatile threshold switching (TS) behaviors and rich dynamics are promising candidates to emulate the biological spiking neurons beyond the CMOS technology and build high-efficient neuromorphic systems. Herein, the state-of-the-art about the fundamental knowledge of SNNs is reviewed. Moreover, we review the implementation of TS memristor-based neurons and their systems, and point out the challenges that should be further considered from devices to circuits in the system demonstrations. We hope that this review could provide clues and be helpful for the future development of neuromorphic computing with memristors

The establishment and validation of a prediction model for traumatic intracranial injury patients: a reliable nomogram

ObjectiveTraumatic brain injury (TBI) leads to death and disability. This study developed an effective prognostic nomogram for assessing the risk factors for TBI mortality.MethodData were extracted from an online database called “Multiparameter Intelligent Monitoring in Intensive Care IV” (MIMIC IV). The ICD code obtained data from 2,551 TBI persons (first ICU stay, >18 years old) from this database. R divided samples into 7:3 training and testing cohorts. The univariate analysis determined whether the two cohorts differed statistically in baseline data. This research used forward stepwise logistic regression after independent prognostic factors for these TBI patients. The optimal variables were selected for the model by the optimal subset method. The optimal feature subsets in pattern recognition improved the model prediction, and the minimum BIC forest of the high-dimensional mixed graph model achieved a better prediction effect. A nomogram-labeled TBI-IHM model containing these risk factors was made by nomology in State software. Least Squares OLS was used to build linear models, and then the Receiver Operating Characteristic (ROC) curve was plotted. The TBI-IHM nomogram model's validity was determined by receiver operating characteristic curves (AUCs), correction curve, Hosmer-Lemeshow test, integrated discrimination improvement (IDI), net reclassification improvement (NRI), and decision-curve analysis (DCA).ResultThe eight features with a minimal BIC model were mannitol use, mechanical ventilation, vasopressor use, international normalized ratio, urea nitrogen, respiratory rate, and cerebrovascular disease. The proposed nomogram (TBI-IHM model) was the best mortality prediction model, with better discrimination and superior model fitting for severely ill TBI patients staying in ICU. The model's receiver operating characteristic curve (ROC) was the best compared to the seven other models. It might be clinically helpful for doctors to make clinical decisions.ConclusionThe proposed nomogram (TBI-IHM model) has significant potential as a clinical utility in predicting mortality in TBI patients

GWSpace: a multi-mission science data simulator for space-based gravitational wave detection

Space-based gravitational wave detectors such as TianQin, LISA, and TaiJi have the potential to outperform themselves through joint observation. To achieve this, it is desirable to practice joint data analysis in advance on simulated data that encodes the intrinsic correlation among the signals found in different detectors that operate simultaneously. In this paper, we introduce \texttt{GWSpace}, a package that can simulate the joint detection data from TianQin, LISA, and TaiJi. The software is not a groundbreaking work that starts from scratch. Rather, we use as many open-source resources as possible, tailoring them to the needs of simulating the multi-mission science data and putting everything into a ready-to-go and easy-to-use package. We shall describe the main components, the construction, and a few examples of application of the package. A common coordinate system, namely the Solar System Barycenter (SSB) coordinate system, is utilized to calculate spacecraft orbits for all three missions. The paper also provides a brief derivation of the detection process and outlines the general waveform of sources detectable by these detectors.Comment: 24 pages, 13 figures, GWSpace will be uploaded at https://github.com/TianQinSYSU/GWSpac

Transcriptome profiling and digital gene expression by deep-sequencing in normal/regenerative tissues of planarian Dugesia japonica

AbstractPlanarians exhibit an extraordinary ability to regenerate lost body parts which is attributed to an abundance of pluripotent somatic stem cells called neoblasts. In this article, we report a transcriptome sequence of a Planaria subspecies Dugesia japonica derived by high-throughput sequencing. In addition, we researched transcriptome changes during different periods of regeneration by using a tag-based digital gene expression (DGE) system. Consequently, 11,913,548 transcriptome sequencing reads were obtained. Finally, these reads were eventually assembled into 37,218 unique unigenes. These assembled unigenes were annotated with various methods. Transcriptome changes during planarian regeneration were investigated by using a tag-based DGE system. We obtained a sequencing depth of more than 3.5million tags per sample and identified a large number of differentially expressed genes at various stages of regeneration. The results provide a fairly comprehensive molecular biology background to the research on planarian development, particularly with regard to its regeneration progress

Association of sleep behaviors, insulin resistance surrogates, and the risk of hypertension in Chinese adults with type 2 diabetes mellitus

ObjectiveOur aim was to evaluate the association between midday napping, combined sleep quality, and insulin resistance surrogates and the risk of hypertension in patients with type 2 diabetes mellitus (T2DM).MethodsData were collected using a standardized questionnaire. Binary logistic regression was performed to estimate the odds ratio (OR) and 95% confidence interval (CI) for the risk of hypertension. Systolic and diastolic blood pressure were grouped as categorical variables and unpaired two-sided Student’s t-test and Spearman correlation analysis were performed to estimate the association between different blood pressure levels and insulin resistance surrogates.ResultsThe overall prevalence rate of hypertension was 50%. Age (OR = 1.056, 95% CI:1.044–1.068), poor sleep quality (OR = 1.959, 95% CI:1.393–2.755), hyperlipidemia (OR = 1.821, 95% CI:1.462–2.369), family history of hypertension (OR = 2.811, 95% CI:2.261–3.495), and obesity (OR = 5.515, 95% CI:1.384–21.971) were significantly associated with an increased risk of hypertension. Midday napping for 1–30 min was negatively correlated with the risk of hypertension (OR = 0.534, 95% CI:0.305–0.936, P <0.05).ConclusionPoor sleep quality and obesity are independent risk factors for hypertension. Midday napping (1–30 min) is associated with a decreased risk of hypertension in patients with T2DM

Not performing an OGTT results in underdiagnosis, inadequate risk assessment and probable cost increases of (pre)diabetes in Han Chinese over 40 years: a population-based prospective cohort study

Objective: To explore the influence by not performing an oral glucose tolerance test (OGTT) in Han Chinese over 40 years. Design: Overall, 6682 participants were included in the prospective cohort study and were followed up for 3 years. Methods: Fasting plasma glucose (FPG), 2-h post-load plasma glucose (2h-PG), FPG and 2h-PG (OGTT), and HbA1c testing using World Health Organization (WHO) or American Diabetes Association (ADA) criteria were employed for strategy analysis. Results: The prevalence of diabetes is 12.4% (95% CI: 11.6–13.3), while the prevalence of prediabetes is 34.1% (95% CI: 32.9–35.3) and 56.5% (95% CI: 55.2–57.8) using WHO and ADA criteria, respectively. 2h-PG determined more diabetes individuals than FPG and HbA1c. The testing cost per true positive case of OGTT is close to FPG and less than 2h-PG or HbA1c. FPG, 2h-PG and HbA1c strategies would increase costs from complications for false-positive (FP) or false-negative (FN) results compared with OGTT. Moreover, the least individuals identified as normal by OGTT at baseline developed (pre)diabetes, and the most prediabetes individuals identified by HbA1c or FPG using ADA criteria developed diabetes. Conclusions: The prevalence of isolated impaired glucose tolerance and isolated 2-h post-load diabetes were high, and the majority of individuals with (pre)diabetes were undetected in Chinese Han population. Not performing an OGTT results in underdiagnosis, inadequate developing risk assessment and probable cost increases of (pre)diabetes in Han Chinese over 40 years and great consideration should be given to OGTT in detecting (pre)diabetes in this population. Further population-based prospective cohort study of longer-term effects is necessary to investigate the risk assessment and cost of (pre)diabetes