Anti-diabetic effect of anthocyanin cyanidin-3-O-glucoside: data from insulin resistant hepatocyte and diabetic mouse.

BACKGROUND: Anthocyanins are a group of natural products widely found in plants. They have been found to alleviate the disorders of glucose metabolism in type 2 diabetes mellitus (T2DM), while the underlying mechanisms remain unclear. METHODS: HepG2 and L02 cells were incubated with 0.2 mM PA and 30 mM glucose for 24 h to induce IR, and cells treated with 5 mM glucose were used as the control. C57BL/6 J male mice and db/db male mice were fed with a chow diet and gavaged with pure water or cyanidin-3-O-glucoside (C3G) solution (150 mg/kg/day) for 6 weeks. RESULTS: In this study, the anthocyanin C3G, extracted from red bayberry, was found to alleviate disorders of glucose metabolism, which resulted in increased insulin sensitivity in hepatocytes, and achieved by enhancing the glucose consumption as well as glycogen synthesis in insulin resistance (IR) hepatpcytes. Subsequently, the expression of key proteins involved in IR was detected by western blotting analysis. Protein tyrosine phosphatase-1B (PTP1B), a negative regulator of insulin signaling, could reduce cellular sensitivity to insulin by inhibiting the phosphorylation of insulin receptor substrate-2 (IRS-2). Results of this study showed that C3G inhibited the increase in PTP1B after high glucose and palmitic acid treatment. And this inhibition was accompanied by increased phosphorylation of IRS proteins. Furthermore, the effect of C3G on improving IR in vivo was validated by using a diabetic db/db mouse model. CONCLUSION: These findings demonstrated that C3G could alleviate IR in vitro and in vivo to increase insulin sensitivity, which may offer a new insight for regulating glucose metabolism during T2DM by using the natural dietary bioactive components. C3G promotes the phosphorylation of IRS-2 proteins by suppressing the expression of PTP1B, and then enhances the sensitivity of hepatocyte to insulin.

A multiomics analysis-assisted deep learning model identifies a macrophage-oriented module as a potential therapeutic target in colorectal cancer.

Colorectal cancer (CRC) is a common malignancy involving multiple cellular components. The CRC tumor microenvironment (TME) has been characterized well at single-cell resolution. However, a spatial interaction map of the CRC TME is still elusive. Here, we integrate multiomics analyses and establish a spatial interaction map to improve the prognosis, prediction, and therapeutic development for CRC. We construct a CRC immune module (CCIM) that comprises FOLR2+ macrophages, exhausted CD8+ T cells, tolerant CD8+ T cells, exhausted CD4+ T cells, and regulatory T cells. Multiplex immunohistochemistry is performed to depict the CCIM. Based on this, we utilize advanced deep learning technology to establish a spatial interaction map and predict chemotherapy response. CCIM-Net is constructed, which demonstrates good predictive performance for chemotherapy response in both the training and testing cohorts. Lastly, targeting FOLR2+ macrophage therapeutics is used to disrupt the immunosuppressive CCIM and enhance the chemotherapy response in vivo.

Development of a whole-slide-level segmentation-based dMMR/pMMR deep learning detector for colorectal cancer.

To investigate whole-slide-level prediction in the field of artificial intelligence identification of dMMR/pMMR from hematoxylin and eosin (H&E) in colorectal cancer (CRC), we established a segmentation-based dMMR/pMMR deep learning detector (SPEED). Our model was approximately 1,700 times faster than that of the classification-based model. For the internal validation cohort, our model yielded an overall AUC of 0.989. For the external validation cohort, the model exhibited a high performance, with an AUC of 0.865. The human‒machine strategy further improved the model performance for external validation by an AUC up to 0.988. Our whole-slide-level prediction model provided an approach for dMMR/pMMR detection from H&E whole slide images with excellent predictive performance and less computer processing time in patients with CRC.

Dynamic UAV Phenotyping for Rice Disease Resistance Analysis Based on Multisource Data.

Bacterial blight poses a threat to rice production and food security, which can be controlled through large-scale breeding efforts toward resistant cultivars. Unmanned aerial vehicle (UAV) remote sensing provides an alternative means for the infield phenotype evaluation of crop disease resistance to relatively time-consuming and laborious traditional methods. However, the quality of data acquired by UAV can be affected by several factors such as weather, crop growth period, and geographical location, which can limit their utility for the detection of crop disease and resistant phenotypes. Therefore, a more effective use of UAV data for crop disease phenotype analysis is required. In this paper, we used time series UAV remote sensing data together with accumulated temperature data to train the rice bacterial blight severity evaluation model. The best results obtained with the predictive model showed an R p 2 of 0.86 with an RMSEp of 0.65. Moreover, model updating strategy was used to explore the scalability of the established model in different geographical locations. Twenty percent of transferred data for model training was useful for the evaluation of disease severity over different sites. In addition, the method for phenotypic analysis of rice disease we built here was combined with quantitative trait loci (QTL) analysis to identify resistance QTL in genetic populations at different growth stages. Three new QTLs were identified, and QTLs identified at different growth stages were inconsistent. QTL analysis combined with UAV high-throughput phenotyping provides new ideas for accelerating disease resistance breeding.

Category weighted network and relation weighted label for diabetic retinopathy screening.

Diabetic retinopathy (DR) is the primary cause of blindness in adults. Incorporating machine learning into DR grading can improve the accuracy of medical diagnosis. However, problems, such as severe data imbalance, persists. Existing studies on DR grading ignore the correlation between its labels. In this study, a category weighted network (CWN) was proposed to achieve data balance at the model level. In the CWN, a reference for weight settings is provided by calculating the category gradient norm and reducing the experimental overhead. We proposed to use relation weighted labels instead of the one-hot label to investigate the distance relationship between labels. Experiments revealed that the proposed CWN achieved excellent performance on various DR datasets. Furthermore, relation weighted labels exhibit broad applicability and can improve other methods using one-hot labels. The proposed method achieved kappa scores of 0.9431 and 0.9226 and accuracy of 90.94% and 86.12% on DDR and APTOS datasets, respectively.

Evaluation of rice bacterial blight severity from lab to field with hyperspectral imaging technique.

Hyperspectral imaging technique combined with machine learning is a powerful tool for the evaluation of disease phenotype in rice disease-resistant breeding. However, the current studies are almost carried out in the lab environment, which is difficult to apply to the field environment. In this paper, we used visible/near-infrared hyperspectral images to analysis the severity of rice bacterial blight (BB) and proposed a novel disease index construction strategy (NDSCI) for field application. A designed long short-term memory network with attention mechanism could evaluate the BB severity robustly, and the attention block could filter important wavelengths. Best results were obtained based on the fusion of important wavelengths and color features with an accuracy of 0.94. Then, NSDCI was constructed based on the important wavelength and color feature related to BB severity. The correlation coefficient of NDSCI extended to the field data reached -0.84, showing good scalability. This work overcomes the limitations of environmental conditions and sheds new light on the rapid measurement of phenotype in disease-resistant breeding.

Genomic insights into the evolution of Echinochloa species as weed and orphan crop.

As one of the great survivors of the plant kingdom, barnyard grasses (Echinochloa spp.) are the most noxious and common weeds in paddy ecosystems. Meanwhile, at least two Echinochloa species have been domesticated and cultivated as millets. In order to better understand the genomic forces driving the evolution of Echinochloa species toward weed and crop characteristics, we assemble genomes of three Echinochloa species (allohexaploid E. crus-galli and E. colona, and allotetraploid E. oryzicola) and re-sequence 737 accessions of barnyard grasses and millets from 16 rice-producing countries. Phylogenomic and comparative genomic analyses reveal the complex and reticulate evolution in the speciation of Echinochloa polyploids and provide evidence of constrained disease-related gene copy numbers in Echinochloa. A population-level investigation uncovers deep population differentiation for local adaptation, multiple target-site herbicide resistance mutations of barnyard grasses, and limited domestication of barnyard millets. Our results provide genomic insights into the dual roles of Echinochloa species as weeds and crops as well as essential resources for studying plant polyploidization, adaptation, precision weed control and millet improvements.

Sequential Recommendation Based on Multivariate Hawkes Process Embedding With Attention.

Recommender systems are important approaches for dealing with the information overload problem in the big data era, and various kinds of auxiliary information, including time and sequential information, can help improve the performance of retrieval and recommendation tasks. However, it is still a challenging problem how to fully exploit such information to achieve high-quality recommendation results and improve users' experience. In this work, we present a novel sequential recommendation model, called multivariate Hawkes process embedding with attention (MHPE-a), which combines a temporal point process with the attention mechanism to predict the items that the target user may interact with according to her/his historical records. Specifically, the proposed approach MHPE-a can model users' sequential patterns in their temporal interaction sequences accurately with a multivariate Hawkes process. Then, we perform an accurate sequential recommendation to satisfy target users' real-time requirements based on their preferences obtained with MHPE-a from their historical records. Especially, an attention mechanism is used to leverage users' long/short-term preferences adaptively to achieve an accurate sequential recommendation. Extensive experiments are conducted on two real-world datasets (lastfm and gowalla), and the results show that MHPE-a achieves better performance than state-of-the-art baselines.

CAME: Content- and Context-Aware Music Embedding for Recommendation.

Traditional recommendation methods suffer from limited performance, which can be addressed by incorporating abundant auxiliary/side information. This article focuses on a personalized music recommender system that incorporates rich content and context data in a unified and adaptive way to address the abovementioned problems. The content information includes music textual content, such as metadata, tags, and lyrics, and the context data incorporate users' behaviors, including music listening records, music playing sequences, and sessions. Specifically, a heterogeneous information network (HIN) is first presented to incorporate different kinds of content and context data. Then, a novel method called content- and context-aware music embedding (CAME) is proposed to obtain the low-dimension dense real-valued feature representations (embeddings) of music pieces from HIN. Especially, one music piece generally highlights different aspects when interacting with various neighbors, and it should have different representations separately. CAME seamlessly combines deep learning techniques, including convolutional neural networks and attention mechanisms, with the embedding model to capture the intrinsic features of music pieces as well as their dynamic relevance and interactions adaptively. Finally, we further infer users' general musical preferences as well as their contextual preferences for music and propose a content- and context-aware music recommendation method. Comprehensive experiments as well as quantitative and qualitative evaluations have been performed on real-world music data sets, and the results show that the proposed recommendation approach outperforms state-of-the-art baselines and is able to handle sparse data effectively.

A Multi-Scale Activity Transition Network for Data Translation in EEG Signals Decoding.

Electroencephalogram (EEG) is a non-invasive collection method for brain signals. It has broad prospects in brain-computer interface (BCI) applications. Recent advances have shown the effectiveness of the widely used convolutional neural network (CNN) in EEG decoding. However, some studies reveal that a slight disturbance to the inputs, e.g., data translation, can change CNN's outputs. Such instability is dangerous for EEG-based BCI applications because signals in practice are different from training data. In this study, we propose a multi-scale activity transition network (MSATNet) to alleviate the influence of the translation problem in convolution-based models. MSATNet provides an activity state pyramid consisting of multi-scale recurrent neural networks to capture the relationship between brain activities, which is a translation-invariant feature. In the experiment, Kullback-Leibler divergence is applied to measure the degree of translation. The comprehensive results demonstrate that our method surpasses the AUC of 0.0080, 0.0254, 0.0393 in 1, 5, and 10 KL divergence compared to competitors with various convolution structures.

SCAU-Net: Spatial-Channel Attention U-Net for Gland Segmentation.

With the development of medical technology, image semantic segmentation is of great significance for morphological analysis, quantification, and diagnosis of human tissues. However, manual detection and segmentation is a time-consuming task. Especially for biomedical image, only experts are able to identify tissues and mark their contours. In recent years, the development of deep learning has greatly improved the accuracy of computer automatic segmentation. This paper proposes a deep learning image semantic segmentation network named Spatial-Channel Attention U-Net (SCAU-Net) based on current research status of medical image. SCAU-Net has an encoder-decoder-style symmetrical structure integrated with spatial and channel attention as plug-and-play modules. The main idea is to enhance local related features and restrain irrelevant features at the spatial and channel levels. Experiments on the gland dataset GlaS and CRAG show that the proposed SCAU-Net model is superior to the classic U-Net model in image segmentation task, with 1% improvement on Dice score and 1.5% improvement on Jaccard score.

Development, Validation and Comparison of Artificial Neural Network Models and Logistic Regression Models Predicting Survival of Unresectable Pancreatic Cancer.

Background: Prediction models for the overall survival of pancreatic cancer remain unsatisfactory. We aimed to explore artificial neural networks (ANNs) modeling to predict the survival of unresectable pancreatic cancer patients. Methods: Thirty-two clinical parameters were collected from 221 unresectable pancreatic cancer patients, and their prognostic ability was evaluated using univariate and multivariate logistic regression. ANN and logistic regression (LR) models were developed on a training group (168 patients), and the area under the ROC curve (AUC) was used for comparison of the ANN and LR models. The models were further tested on the testing group (53 patients), and k-statistics were used for accuracy comparison. Results: We built three ANN models, based on 3, 7, and 32 basic features, to predict 8 month survival. All 3 ANN models showed better performance, with AUCs significantly higher than those from the respective LR models (0.811 vs. 0.680, 0.844 vs. 0.722, 0.921 vs. 0.849, all p < 0.05). The ability of the ANN models to discriminate 8 month survival with higher accuracy than the respective LR models was further confirmed in 53 consecutive patients. Conclusion: We developed ANN models predicting the 8 month survival of unresectable pancreatic cancer patients. These models may help to optimize personalized patient management.

A Recommendation System to Facilitate Business Process Modeling.

This paper presents a system that utilizes process recommendation technology to help design new business processes from scratch in an efficient and accurate way. The proposed system consists of two phases: 1) offline mining and 2) online recommendation. At the first phase, it mines relations among activity nodes from existing processes in repository, and then stores the extracted relations as patterns in a database. At the second phase, it compares the new process under construction with the premined patterns, and recommends proper activity nodes of the most matching patterns to help build a new process. Specifically, there are three different online recommendation strategies in this system. Experiments on both real and synthetic datasets are conducted to compare the proposed approaches with the other state-of-the-art ones, and the results show that the proposed approaches outperform them in terms of accuracy and efficiency.

On Deep Learning for Trust-Aware Recommendations in Social Networks.

With the emergence of online social networks, the social network-based recommendation approach is popularly used. The major benefit of this approach is the ability of dealing with the problems with cold-start users. In addition to social networks, user trust information also plays an important role to obtain reliable recommendations. Although matrix factorization (MF) becomes dominant in recommender systems, the recommendation largely relies on the initialization of the user and item latent feature vectors. Aiming at addressing these challenges, we develop a novel trust-based approach for recommendation in social networks. In particular, we attempt to leverage deep learning to determinate the initialization in MF for trust-aware social recommendations and to differentiate the community effect in user's trusted friendships. A two-phase recommendation process is proposed to utilize deep learning in initialization and to synthesize the users' interests and their trusted friends' interests together with the impact of community effect for recommendations. We perform extensive experiments on real-world social network data to demonstrate the accuracy and effectiveness of our proposed approach in comparison with other state-of-the-art methods.

Toward Risk Reduction for Mobile Service Composition.

The advances in mobile technologies enable us to consume or even provide services through powerful mobile devices anytime and anywhere. Services running on mobile devices within limited range can be composed to coordinate together through wireless communication technologies and perform complex tasks. However, the mobility of users and devices in mobile environment imposes high risk on the execution of the tasks. This paper targets reducing this risk by constructing a dependable service composition after considering the mobility of both service requesters and providers. It first proposes a risk model and clarifies the risk of mobile service composition; and then proposes a service composition approach by modifying the simulated annealing algorithm. Our objective is to form a service composition by selecting mobile services under the mobility model and to ensure the service composition have the best quality of service and the lowest risk. The experimental results demonstrate that our approach can yield near-optimal solutions and has a nearly linear complexity with respect to a problem size.

Towards Semantic e-Science for Traditional Chinese Medicine.

BACKGROUND: Recent advances in Web and information technologies with the increasing decentralization of organizational structures have resulted in massive amounts of information resources and domain-specific services in Traditional Chinese Medicine. The massive volume and diversity of information and services available have made it difficult to achieve seamless and interoperable e-Science for knowledge-intensive disciplines like TCM. Therefore, information integration and service coordination are two major challenges in e-Science for TCM. We still lack sophisticated approaches to integrate scientific data and services for TCM e-Science. RESULTS: We present a comprehensive approach to build dynamic and extendable e-Science applications for knowledge-intensive disciplines like TCM based on semantic and knowledge-based techniques. The semantic e-Science infrastructure for TCM supports large-scale database integration and service coordination in a virtual organization. We use domain ontologies to integrate TCM database resources and services in a semantic cyberspace and deliver a semantically superior experience including browsing, searching, querying and knowledge discovering to users. We have developed a collection of semantic-based toolkits to facilitate TCM scientists and researchers in information sharing and collaborative research. CONCLUSION: Semantic and knowledge-based techniques are suitable to knowledge-intensive disciplines like TCM. It's possible to build on-demand e-Science system for TCM based on existing semantic and knowledge-based techniques. The presented approach in the paper integrates heterogeneous distributed TCM databases and services, and provides scientists with semantically superior experience to support collaborative research in TCM discipline.