Analysis of muscle synergies and muscle network in sling exercise rehabilitation technique.

The study assessed motor control strategies across the four sling exercises of supine sling exercise (SSE), prone sling exercise (PSE), left side-lying sling exercise (LLSE), and right side-lying sling exercise (RLSE) positions base on the muscle synergies and muscle network analyses. Muscle activities of bilateral transversus abdominis (TA), rectus abdominis, multifidus (MF), and erector spinae (ES) were captured via surface electromyography. Muscle synergies were extracted through principal components analysis (PCA) and non-negative matrix factorization (NNMF). Muscle synergies number, muscle synergies complexity, muscle synergies sparseness, muscle synergies clusters and muscle networks were calculated. PCA results indicated that SSE and PSE decomposed into 2.88 ± 0.20 and 2.82 ± 0.15 synergies respectively, while the LLSE and RLSE positions decomposed into 3.76 ± 0.14 and 3.71 ± 0.11 muscle synergies, respectively, which were more complex (P = 0.00) but less sparse (P = 0.01). Muscle synergies clusters analysis indicated common muscle synergies among different sling exercises. SSE position demonstrated specific muscle synergies with a strong contribution of the bilateral TA. LLSE-specific synergy has a strong contribution of the left erector spinae (ES). The RLSE-specific synergy has significant contributions from the right ES and multifidus. Muscle networks were functionally organized, with clustering coefficient (F(1.5, 24) = 6.041, P = 0.01) and global efficiency of the undirected network (F(1.5, 24) = 6.041, P = 0.01), and betweenness-centrality of the directed network (F(2.7, 44) = 6.453, P = 0.00). Our research highlights the importance of evaluating muscle synergies and network adaptation strategies in individuals with neuromuscular disorders and developing targeted therapeutic interventions accordingly.

Dimension reduction, cell clustering, and cell-cell communication inference for single-cell transcriptomics with DcjComm.

Advances in single-cell transcriptomics provide an unprecedented opportunity to explore complex biological processes. However, computational methods for analyzing single-cell transcriptomics still have room for improvement especially in dimension reduction, cell clustering, and cell-cell communication inference. Herein, we propose a versatile method, named DcjComm, for comprehensive analysis of single-cell transcriptomics. DcjComm detects functional modules to explore expression patterns and performs dimension reduction and clustering to discover cellular identities by the non-negative matrix factorization-based joint learning model. DcjComm then infers cell-cell communication by integrating ligand-receptor pairs, transcription factors, and target genes. DcjComm demonstrates superior performance compared to state-of-the-art methods.

Microbe-disease associations prediction by graph regularized non-negative matrix factorization with L 2 , 1 $$ {L}_{2,1} $$ norm regularization terms.

Microbes are involved in a wide range of biological processes and are closely associated with disease. Inferring potential disease-associated microbes as the biomarkers or drug targets may help prevent, diagnose and treat complex human diseases. However, biological experiments are time-consuming and expensive. In this study, we introduced a new method called iPALM-GLMF, which modelled microbe-disease association prediction as a problem of non-negative matrix factorization with graph dual regularization terms and L 2 , 1 $$ {L}_{2,1} $$ norm regularization terms. The graph dual regularization terms were used to capture potential features in the microbe and disease space, and the L 2 , 1 $$ {L}_{2,1} $$ norm regularization terms were used to ensure the sparsity of the feature matrices obtained from the non-negative matrix factorization and to improve the interpretability. To solve the model, iPALM-GLMF used a non-negative double singular value decomposition to initialize the matrix factorization and adopted an inertial Proximal Alternating Linear Minimization iterative process to obtain the final matrix factorization results. As a result, iPALM-GLMF performed better than other existing methods in leave-one-out cross-validation and fivefold cross-validation. In addition, case studies of different diseases demonstrated that iPALM-GLMF could effectively predict potential microbial-disease associations. iPALM-GLMF is publicly available at https://github.com/LiangzheZhang/iPALM-GLMF.

Predicting the potential associations between circRNA and drug sensitivity using a multisource feature-based approach.

The unique non-coding RNA molecule known as circular RNA (circRNA) is distinguished from conventional linear RNA by having a longer half-life, greater degree of conservation and inherent solidity. Extensive research has demonstrated the profound impact of circRNA expression on cellular drug sensitivity and therapeutic efficacy. There is an immediate need for the creation of efficient computational techniques to anticipate the potential correlations between circRNA and drug sensitivity, as classical biological research approaches are time-consuming and costly. In this work, we introduce a novel deep learning model called SNMGCDA, which aims to forecast the relationships between circRNA and drug sensitivity. SNMGCDA incorporates a diverse range of similarity networks, enabling the derivation of feature vectors for circRNAs and drugs using three distinct calculation methods. First, we utilize a sparse autoencoder for the extraction of drug characteristics. Subsequently, the application of non-negative matrix factorization (NMF) enables the identification of relationships between circRNAs and drugs based on their shared features. Additionally, the multi-head graph attention network is employed to capture the characteristics of circRNAs. After acquiring the characteristics from these three separate components, we combine them to form a unified and inclusive feature vector for each cluster of circRNA and drug. Finally, the relevant feature vectors and labels are inputted into a multilayer perceptron (MLP) to make predictions. The outcomes of the experiment, obtained through 5-fold cross-validation (5-fold CV) and 10-fold cross-validation (10-fold CV), demonstrate SNMGCDA outperforms five other state-of-art methods in terms of performance. Additionally, the majority of case studies have predominantly confirmed newly discovered correlations by SNMGCDA, thereby emphasizing its reliability in predicting potential relationships between circRNAs and drugs.

Improved Non-Negative Matrix Factorization-Based Noise Reduction of Leakage Acoustic Signals.

The detection of gas leaks using acoustic signals is often compromised by environmental noise, which significantly impacts the accuracy of subsequent leak identification. Current noise reduction algorithms based on non-negative matrix factorization (NMF) typically utilize the Euclidean distance as their objective function, which can exacerbate noise anomalies. Moreover, these algorithms predominantly rely on simple techniques like Wiener filtering to estimate the amplitude spectrum of pure signals. This approach, however, falls short in accurately estimating the amplitude spectrum of non-stationary signals. Consequently, this paper proposes an improved non-negative matrix factorization (INMF) noise reduction algorithm that enhances the traditional NMF by refining both the objective function and the amplitude spectrum estimation process for reconstructed signals. The improved algorithm replaces the conventional Euclidean distance with the Kullback-Leibler (KL) divergence and incorporates noise and sparse constraint terms into the objective function to mitigate the adverse effects of signal amplification. Unlike traditional methods such as Wiener filtering, the proposed algorithm employs an adaptive Minimum Mean-Square Error-Log Spectral Amplitude (MMSE-LSA) method to estimate the amplitude spectrum of non-stationary signals adaptively across varying signal-to-noise ratios. Comparative experiments demonstrate that the INMF algorithm significantly outperforms existing methods in denoising leakage acoustic signals.

A Hierarchical Matrix Factorization-Based Method for Intelligent Industrial Fault Diagnosis.

Data-driven fault diagnosis, identifying abnormality causes using collected industrial data, is one of the challenging tasks for intelligent industry safety management. It is worth noting that practical industrial data are usually related to a mixture of several physical attributes, such as the operating environment, product quality and working conditions. However, the traditional models may not be sufficient to leverage the coherent information for diagnostic performance enhancement, due to their shallow architecture. This paper presents a hierarchical matrix factorization (HMF) that relies on a succession of matrix factoring to find an efficient representation of industrial data for fault diagnosis. Specifically, HMF consecutively decomposes data into several hierarchies. The intermediate hierarchies play the role of analysis operators which automatically learn implicit characteristics of industrial data; the final hierarchy outputs high-level and discriminative features. Furthermore, HMF is also extended in a nonlinear manner by introducing activation functions, referred as NHMF, to deal with nonlinearities in practical industrial processes. The applications of HMF and NHMF to fault diagnosis are evaluated by the multiple-phase flow process. The experimental results show that our models achieve competitive performance against the considered shallow and deep models, consuming less computing time than deep models.

Transferring knowledge across aquatic species via clustering techniques to unravel patterns of pesticide toxicity.

In silico modelling takes the advantage of accelerating ecotoxicological assessments on hazardous chemicals without conducting risky in vivo experiments under ethic regulation. To date, the prevailing strategy of one model for one species cannot be well generalized to multi-species modelling. In this work, we propose a new strategy of one model for multiple species to facilitate knowledge transfer across aquatic species. The available lethal concentration values of 4952 pesticides on 651 fish species are aggregated into one toxicity response matrix, purely through which we attempt to unravel fish toxicosis-phylogenesis relationships and pesticide toxicity-structure relationships via clustering techniques including non-negative matrix factorization (NMF) and hierarchical clustering. The clustering results suggest that (1) close NMF weights indicate close species-toxicosis and pesticide-toxicity profiles; (2) and that species toxicosis patterns are related with species phylogenetic relationships; (3) and that close pesticide-toxicity profiles indicate similar atom-pair structural fingerprints. These environmental, chemical and biological insights can be used as expert knowledge for environmentalists to manually gain knowledge about untested species/pesticides from tested species/pesticides, and meanwhile provide support for us to build in silico models from species phylogenetic and pesticide structural points of view. Besides unravelling the mechanisms behind toxicity response, we also adopt stratified cross validation and external test to validate the reliability of using NMF to predict missing toxicity values. Independent test on external data shows that NMF achieves 0.8404-0.9397 R2 on four fish species. In the context of toxicity prediction, non-negative matrix factorization can be viewed as a model based on quantitative activity-activity relationships (QAAR), and provides an alternative approach of inferring toxicity values on untested species from tested species.

Integrating multi-omics data of childhood asthma using a deep association model.

Childhood asthma is one of the most common respiratory diseases with rising mortality and morbidity. The multi-omics data is providing a new chance to explore collaborative biomarkers and corresponding diagnostic models of childhood asthma. To capture the nonlinear association of multi-omics data and improve interpretability of diagnostic model, we proposed a novel deep association model (DAM) and corresponding efficient analysis framework. First, the Deep Subspace Reconstruction was used to fuse the omics data and diagnostic information, thereby correcting the distribution of the original omics data and reducing the influence of unnecessary data noises. Second, the Joint Deep Semi-Negative Matrix Factorization was applied to identify different latent sample patterns and extract biomarkers from different omics data levels. Third, our newly proposed Deep Orthogonal Canonical Correlation Analysis can rank features in the collaborative module, which are able to construct the diagnostic model considering nonlinear correlation between different omics data levels. Using DAM, we deeply analyzed the transcriptome and methylation data of childhood asthma. The effectiveness of DAM is verified from the perspectives of algorithm performance and biological significance on the independent test dataset, by ablation experiment and comparison with many baseline methods from clinical and biological studies. The DAM-induced diagnostic model can achieve a prediction AUC of 0.912, which is higher than that of many other alternative methods. Meanwhile, relevant pathways and biomarkers of childhood asthma are also recognized to be collectively altered on the gene expression and methylation levels. As an interpretable machine learning approach, DAM simultaneously considers the non-linear associations among samples and those among biological features, which should help explore interpretative biomarker candidates and efficient diagnostic models from multi-omics data analysis for human complex diseases.

An exploratory Q-matrix estimation method based on sparse non-negative matrix factorization.

Cognitive diagnostic assessment (CDA) is widely used because it can provide refined diagnostic information. The Q-matrix is the basis of CDA, and can be specified by domain experts or by data-driven estimation methods based on observed response data. The data-driven Q-matrix estimation methods have become a research hotspot because of their objectivity, accuracy, and low calibration cost. However, most of the existing data-driven methods require known prior knowledge, such as initial Q-matrix, partial q-vector, or the number of attributes. Under the G-DINA model, we propose to estimate the number of attributes and Q-matrix elements simultaneously without any prior knowledge by the sparse non-negative matrix factorization (SNMF) method, which has the advantage of high scalability and universality. Simulation studies are carried out to investigate the performance of the SNMF. The results under a wide variety of simulation conditions indicate that the SNMF has good performance in the accuracy of attribute number and Q-matrix elements estimation. In addition, a set of real data is taken as an example to illustrate its application. Finally, we discuss the limitations of the current study and directions for future research.

Mitophagy and clear cell renal cell carcinoma: insights from single-cell and spatial transcriptomics analysis.

Background: Clear Cell Renal Cell Carcinoma (ccRCC) is the most common type of kidney cancer, characterized by high heterogeneity and complexity. Recent studies have identified mitochondrial defects and autophagy as key players in the development of ccRCC. This study aims to delve into the changes in mitophagic activity within ccRCC and its impact on the tumor microenvironment, revealing its role in tumor cell metabolism, development, and survival strategies. Methods: Comprehensive analysis of ccRCC tumor tissues using single cell sequencing and spatial transcriptomics to reveal the role of mitophagy in ccRCC. Mitophagy was determined to be altered among renal clear cells by gene set scoring. Key mitophagy cell populations and key prognostic genes were identified using NMF analysis and survival analysis approaches. The role of UBB in ccRCC was also demonstrated by in vitro experiments. Results: Compared to normal kidney tissue, various cell types within ccRCC tumor tissues exhibited significantly increased levels of mitophagy, especially renal clear cells. Key genes associated with increased mitophagy levels, such as UBC, UBA52, TOMM7, UBB, MAP1LC3B, and CSNK2B, were identified, with their high expression closely linked to poor patient prognosis. Particularly, the ubiquitination process involving the UBB gene was found to be crucial for mitophagy and its quality control. Conclusion: This study highlights the central role of mitophagy and its regulatory factors in the development of ccRCC, revealing the significance of the UBB gene and its associated ubiquitination process in disease progression.

Precision probiotics supplement strategy in aging population based on gut microbiome composition.

With the increasing prevalence of age-related chronic diseases burdening healthcare systems, there is a pressing need for innovative management strategies. Our study focuses on the gut microbiota, essential for metabolic, nutritional, and immune functions, which undergoes significant changes with aging. These changes can impair intestinal function, leading to altered microbial diversity and composition that potentially influence health outcomes and disease progression. Using advanced metagenomic sequencing, we explore the potential of personalized probiotic supplements in 297 older adults by analyzing their gut microbiota. We identified distinctive Lactobacillus and Bifidobacterium signatures in the gut microbiota of older adults, revealing probiotic patterns associated with various population characteristics, microbial compositions, cognitive functions, and neuroimaging results. These insights suggest that tailored probiotic supplements, designed to match individual probiotic profile, could offer an innovative method for addressing age-related diseases and functional declines. Our findings enhance the existing evidence base for probiotic use among older adults, highlighting the opportunity to create more targeted and effective probiotic strategies. However, additional research is required to validate our results and further assess the impact of precision probiotics on aging populations. Future studies should employ longitudinal designs and larger cohorts to conclusively demonstrate the benefits of tailored probiotic treatments.

Separation and Extraction of Compound-Fault Signal Based on Multi-Constraint Non-Negative Matrix Factorization.

To solve the separation of multi-source signals and detect their features from a single channel, a signal separation method using multi-constraint non-negative matrix factorization (NMF) is proposed. In view of the existing NMF algorithm not performing well in the underdetermined blind source separation, the ß-divergence constraints and determinant constraints are introduced in the NMF algorithm, which can enhance local feature information and reduce redundant components by constraining the objective function. In addition, the Sine-bell window function is selected as the processing method for short-time Fourier transform (STFT), and it can preserve the overall feature distribution of the original signal. The original vibration signal is first transformed into time-frequency domain with the STFT, which describes the local characteristic of the signal from the time-frequency distribution. Then, the multi-constraint NMF is applied to reduce the dimensionality of the data and separate feature components in the low dimensional space. Meanwhile, the parameter WK is constructed to filter the reconstructed signal that recombined with the feature component in the time domain. Ultimately, the separated signals will be subjected to envelope spectrum analysis to detect fault features. The simulated and experimental results indicate the effectiveness of the proposed approach, which can realize the separation of multi-source signals and their fault diagnosis of bearings. In addition, it is also confirmed that the proposed method, juxtaposed with the NMF algorithm of the traditional objective function, is more applicable for compound fault diagnosis of the rotating machinery.

Integrative analysis of cancer multimodality data identifying COPS5 as a novel biomarker of diffuse large B-cell lymphoma.

Preventing, diagnosing, and treating diseases requires accurate clinical biomarkers, which remains challenging. Recently, advanced computational approaches have accelerated the discovery of promising biomarkers from high-dimensional multimodal data. Although machine-learning methods have greatly contributed to the research fields, handling data sparseness, which is not unusual in research settings, is still an issue as it leads to limited interpretability and performance in the presence of missing information. Here, we propose a novel pipeline integrating joint non-negative matrix factorization (JNMF), identifying key features within sparse high-dimensional heterogeneous data, and a biological pathway analysis, interpreting the functionality of features by detecting activated signaling pathways. By applying our pipeline to large-scale public cancer datasets, we identified sets of genomic features relevant to specific cancer types as common pattern modules (CPMs) of JNMF. We further detected COPS5 as a potential upstream regulator of pathways associated with diffuse large B-cell lymphoma (DLBCL). COPS5 exhibited co-overexpression with MYC, TP53, and BCL2, known DLBCL marker genes, and its high expression was correlated with a lower survival probability of DLBCL patients. Using the CRISPR-Cas9 system, we confirmed the tumor growth effect of COPS5, which suggests it as a novel prognostic biomarker for DLBCL. Our results highlight that integrating multiple high-dimensional data and effectively decomposing them to interpretable dimensions unravels hidden biological importance, which enhances the discovery of clinical biomarkers.

Concerto of movement: how expertise shapes the synergistic control of upper limb muscles in complex motor tasks with varying tempo and dynamics.

Objective. This research aims to reveal how the synergistic control of upper limb muscles adapts to varying requirements in complex motor tasks and how expertise shapes the motor modules.Approach. We study the muscle synergies of a complex, highly skilled and flexible task-piano playing-and characterize expertise-related muscle-synergy control that permits the experts to effortlessly execute the same task at different tempo and force levels. Surface EMGs (28 muscles) were recorded from adult novice (N= 10) and expert (N= 10) pianists as they played scales and arpeggios at different tempo-force combinations. Muscle synergies were factorized from EMGs.Main results. We found that experts were able to cover both tempo and dynamic ranges using similar synergy selections and achieved better performance, while novices altered synergy selections more to adapt to the changing tempi and keystroke intensities compared with experts. Both groups relied on fine-tuning the muscle weights within specific synergies to accomplish the different task styles, while the experts could tune the muscles in a greater number of synergies, especially when changing the tempo, and switch tempo over a wider range.Significance. Our study sheds light on the control mechanism underpinning expertise-related motor flexibility in highly skilled motor tasks that require decade-long training. Our results have implications on musical and sports training, as well as motor prosthetic design.

Muscle synergies for multidirectional isometric force generation during maintenance of upright standing posture.

Muscle synergies are defined as coordinated recruitment of groups of muscles with specific activation balances and time profiles aimed at generating task-specific motor commands. While muscle synergies in postural control have been investigated primarily in reactive balance conditions, the neuromechanical contribution of muscle synergies during voluntary control of upright standing is still unclear. In this study, muscle synergies were investigated during the generation of isometric force at the trunk during the maintenance of standing posture. Participants were asked to maintain the steady-state upright standing posture while pulling forces of different magnitudes were applied at the level at the waist in eight horizontal directions. Muscle synergies were extracted by nonnegative matrix factorization from sixteen lower limb and trunk muscles. An average of 5-6 muscle synergies were sufficient to account for a wide variety of EMG waveforms associated with changes in the magnitude and direction of pulling forces. A cluster analysis partitioned the muscle synergies of the participants into a large group of clusters according to their similarity, indicating the use of a subjective combination of muscles to generate a multidirectional force vector in standing. Furthermore, we found a participant-specific distribution in the values of cosine directional tuning parameters of synergy amplitude coefficients, suggesting the existence of individual neuromechanical strategies to stabilize the whole-body posture. Our findings provide a starting point for the development of novel diagnostic tools to assess muscle coordination in postural control and lay the foundation for potential applications of muscle synergies in rehabilitation.

Unsupervised separation of nonlinearly mixed event-related potentials using manifold clustering and non-negative matrix factorization.

Event-related potentials (ERPs) can quantify brain responses to reveal the neural mechanisms of sensory perception. However, ERPs often reflect nonlinear mixture responses to multiple sources of sensory stimuli, and an accurate separation of the response to each stimulus remains a challenge. This study aimed to separate the ERP into nonlinearly mixed source components specific to individual stimuli. We developed an unsupervised learning method based on clustering of manifold structures of mixture signals combined with channel optimization for signal source reconstruction using non-negative matrix factorization (NMF). Specifically, we first implemented manifold learning based on Local Tangent Space Alignment (LTSA) to extract the spatial manifold structure of multi-resolution sub-signals separated via wavelet packet transform. We then used fuzzy entropy to extract the dynamical process of the manifold structures and performed a k-means clustering to separate different sources. Lastly, we used NMF to obtain the optimal contributions of multiple channels to ensure accurate source reconstructions. We evaluated our developed approach using a simulated ERP dataset with known ground truth of two components of ERP mixture signals. Our results show that the correlation coefficient between the reconstructed source signal and the true source signal was 92.8 % and that the separation accuracy in ERP amplitude was 91.6 %. The results show that our unsupervised separation approach can accurately separate ERP signals from nonlinear mixture source components. The outcomes provide a promising way to isolate brain responses to multiple stimulus sources during multisensory perception.

Decomposing PM2.5 concentrations in urban environments into meaningful factors: 1. Separating the contribution of local anthropogenic activities from background and long-range transport.

Fine particulate matter (PM2.5) is a complex mixture of aerosol particles with varying properties and sources, both local and distant. In areas lacking detailed monitoring of PM2.5 speciation, the common source-apportionment analyses are not applicable. This study demonstrates an alternative framework for estimating sources and processes that affect observed PM2.5 concentrations when information on the particle composition is unavailable. Eight years (2012-2019) of half-hourly PM2.5 observations from 10 air quality monitoring (AQM) stations, clustered according to their airmass transport sector were analyzed, using Non-negative Matrix Factorization (NMF). Factors were determined based on their variation in time, space, and between airmass sectors. Employing a supervised machine-learning model provided insights into the relationships between the extracted factors, meteorological parameters and co-measured airborne pollutants. Factor interpretations were evaluated through comparisons with measurements of PM2.5 species from a nearby Surface PARTiculate mAtter Network (SPARTAN) station. The NMF successfully separated background factors from an urban anthropogenic-activity factor, with the latter accounting for approximately 60 % of the observed PM2.5 levels in Tel Aviv (∼10±6µg/m3). Positive monotonic relationships were observed between the PM2.5 urban anthropogenic-activity factor and measurements of nitrogen oxides (NOx) and absolute humidity (AH), representing the impact of traffic emissions and hygroscopic growth, respectively. The summer background factor was found to represent long-range transport (LRT) from Europe, showing a good agreement (R2 = 0.81) with ammonium sulphate concentrations. Our results demonstrate that a spatial NMF analysis can reliably estimate contributions of different sources with distinct compositions and properties to the total observed PM2.5. Using such an analysis, future environmental health studies could assess health risks associated with exposure to distinct PM2.5 fractions. This information may assist decision makers to set environmental targets for abating PM2.5 with specific compositions and properties.

Decomposing PM2.5 concentrations in urban environments into meaningful factors 2. Extracting the contribution of traffic-related exhaust emissions.

Vehicle-emitted fine particulate matter (PM2.5) has been associated with significant health outcomes and environmental risks. This study estimates the contribution of traffic-related exhaust emissions (TREE) to observed PM2.5 using a novel factorization framework. Specifically, co-measured nitrogen oxides (NOx) concentrations served as a marker of vehicle-tailpipe emissions and were integrated into the optimization of a Non-negative Matrix Factorization (NMF) analysis to guide the factor extraction. The novel TREE-NMF approach was applied to long-term (2012-2019) PM2.5 observations from air quality monitoring (AQM) stations in two urban areas. The extracted TREE factor was evaluated against co-measured black carbon (BC) and PM2.5 species to which the TREE-NMF optimization was blind. The contribution of the TREE factor to the observed PM2.5 concentrations at an AQM station from the first location showed close agreement (R2=0.79) with monitored BC data. In the second location, a comparison of the extracted TREE factor with measurements at a nearby Surface PARTiculate mAtter Network (SPARTAN) station revealed moderate correlations with PM2.5 species commonly associated with fuel combustion, and a good linear regression fit with measured equivalent BC concentrations. The estimated concentrations of the TREE factor at the second location accounted for 7-11 % of the observed PM2.5 in the AQM stations. Moreover, analysis of specific days known to be characterized by little traffic emissions suggested that approximately 60-78 % of the traffic-related PM2.5 concentrations could be attributed to particulate traffic-exhaust emissions. The methodology applied in this study holds great potential in areas with limited monitoring of PM2.5 speciation, in particular BC, and its results could be valuable for both future environmental health research, regional radiative forcing estimates, and promulgation of tailored regulations for traffic-related air pollution abatement.

Beyond life: Exploring hemodynamic patterns in postmortem mice brains.

We utilize Laser Speckle Contrast Imaging (LSCI) for visualizing cerebral blood flow in mice during and post-cardiac arrest. Analyzing LSCI images, we noted temporal blood flow variations across the brain surface for hours postmortem. Fast Fourier Transform (FFT) analysis depicted blood flow and microcirculation decay post-death. Continuous Wavelet Transform (CWT) identified potential cerebral hemodynamic synchronization patterns. Additionally, non-negative matrix factorization (NMF) with four components segmented LSCI images, revealing structural subcomponent alterations over time. This integrated approach of LSCI, FFT, CWT, and NMF offers a comprehensive tool for studying cerebral blood flow dynamics, metaphorically capturing the 'end of the tunnel' experience. Results showed primary postmortem hemodynamic activity in the olfactory bulbs, followed by blood microflow relocations between somatosensory and visual cortical regions via the superior sagittal sinus. This method opens new avenues for exploring these phenomena, potentially linking neuroscientific insights with mysteries surrounding consciousness and perception at life's end.

GEnDDn: An lncRNA-Disease Association Identification Framework Based on Dual-Net Neural Architecture and Deep Neural Network.

Accumulating studies have demonstrated close relationships between long non-coding RNAs (lncRNAs) and diseases. Identification of new lncRNA-disease associations (LDAs) enables us to better understand disease mechanisms and further provides promising insights into cancer targeted therapy and anti-cancer drug design. Here, we present an LDA prediction framework called GEnDDn based on deep learning. GEnDDn mainly comprises two steps: First, features of both lncRNAs and diseases are extracted by combining similarity computation, non-negative matrix factorization, and graph attention auto-encoder, respectively. And each lncRNA-disease pair (LDP) is depicted as a vector based on concatenation operation on the extracted features. Subsequently, unknown LDPs are classified by aggregating dual-net neural architecture and deep neural network. Using six different evaluation metrics, we found that GEnDDn surpassed four competing LDA identification methods (SDLDA, LDNFSGB, IPCARF, LDASR) on the lncRNADisease and MNDR databases under fivefold cross-validation experiments on lncRNAs, diseases, LDPs, and independent lncRNAs and independent diseases, respectively. Ablation experiments further validated the powerful LDA prediction performance of GEnDDn. Furthermore, we utilized GEnDDn to find underlying lncRNAs for lung cancer and breast cancer. The results elucidated that there may be dense linkages between IFNG-AS1 and lung cancer as well as between HIF1A-AS1 and breast cancer. The results require further biomedical experimental verification. GEnDDn is publicly available at https://github.com/plhhnu/GEnDDn.