Miracle-dz/UniFAR-FTUs huggingface dataset:
Multi-Day EMG-Based Knee Joint Torque Estimation Using Hybrid Neuromusculoskeletal Modelling and Convolutional Neural Networks

Proportional control using surface electromyography (EMG) enables more intuitive control of a transfemoral prosthesis. However, EMG is a noisy signal which can vary over time, giving rise to the question what approach for knee torque estimation is most suitable for multi-day control. In this study we compared three different modelling frameworks to estimate knee torque in non-weight-bearing situations. The first model contained a convolutional neural network (CNN) which mapped EMG to knee torque directly. The second used a neuromusculoskeletal model (NMS) which used EMG, muscle tendon unit lengths and moment arms to compute knee torque. The third model (Hybrid) used a CNN to map EMG to specific muscle activation, which was used together with NMS components to compute knee torque. Multi-day measurements were conducted on ten able-bodied participants who performed non-weight bearing activities. CNN had the best performance in general and on each day (Normalized Root Mean Squared Error (NRMSE) 9.2 ± 4.4%). The Hybrid model (NRMSE 12.4 ± 3.4%) was able to outperform NMS (NRMSE 14.3 ± 4.2%). The NMS model showed no significant difference between measurement days. The CNN model and Hybrid models had significant performance differences between the first day and all other days. CNNs are suited for multi-day torque estimation in terms of error rate, outperforming the other two model types. NMS was the only model type which was robust over all days. This study investigated the behavior of three model types over multiple days, giving insight in the most suited modelling approach for multi-day torque estimation to be used in prosthetic control.
Sedimentary CaCO3 Accumulation in the Deep West Pacific Ocean

Distribution of calcium carbonate (CaCO3) in marine sediment has been studied over the last century, and influence by multiple factors with regard to dissolution and dilution of sedimentary CaCO3 has long been established. There is still lack of quantification on the influence of those factors, so it remains elusive to determine which specific process is driving the down-core variation of CaCO3 content (wtCaCO3%) records. Here, based on a newly compiled CaCO3 data set and a carbonate model, depth-profiles of sedimentary wtCaCO3% from the West Pacific Ocean can be well illustrated, and influence from different factors on their distribution features can be quantified. The deep ocean circulation is found to largely shape the inter-basin disparity in sedimentary wtCaCO3% distribution between the equatorial regions (e.g., the Western Equatorial Pacific Ocean and the Central Pacific Ocean) and the north–west regions (the Philippine Sea and the Northwest Pacific Ocean) in our study region. Moreover, the slow carbonate dissolution rate in the deep Central Pacific Ocean guarantees better accumulation of CaCO3 at depth compared to that in other regions. However, enhanced dilution by non-carbonate materials of sedimentary CaCO3 on a topographic complex can potentially obstruct the dissolution profiles constituted by sedimentary wtCaCO3% in the pelagic ocean. The aforementioned assertion suggests that changes of wtCaCO3% accumulation in marine sediment in the West Pacific Ocean can be used to dictate past changes of the deep ocean circulation (2,500 to 3,000 m) in this area but constraint on the non-carbonate flux, especially on the topographic complex, should be necessary.
Editorial: Biomedical Data Visualization: Methods and Applications

Department of Bioinformatics, School of Basic Medical Sciences, Southern Medical University, Guangzhou, China, State Key Laboratory of Ophthalmology, Zhongshan Ophthalmic Center, Sun Yat-sen University, Guangzhou, China, State Key Laboratory of Emerging Infectious Diseases, School of Public Health, The University of Hong Kong, Pokfulam, Hong Kong SAR, China, Laboratory of Data Discovery for Health Limited, Hong Kong, Hong Kong SAR, China
Transcriptome Meta-Analysis Associated Targeting Hub Genes and Pathways of Drought and Salt Stress Responses in Cotton (Gossypium hirsutum): A Network Biology Approach

Abiotic stress tolerance is an intricate feature controlled through several genes and networks in the plant system. In abiotic stress, salt, and drought are well known to limit cotton productivity. Transcriptomics meta-analysis has arisen as a robust method to unravel the stress-responsive molecular network in crops. In order to understand drought and salt stress tolerance mechanisms, a meta-analysis of transcriptome studies is crucial. To confront these issues, here, we have given details of genes and networks associated with significant differential expression in response to salt and drought stress. The key regulatory hub genes of drought and salt stress conditions have notable associations with functional drought and salt stress-responsive (DSSR) genes. In the network study, nodulation signaling pathways 2 (NSP2), Dehydration-responsive element1 D (DRE1D), ethylene response factor (ERF61), cycling DOF factor 1 (CDF1), and tubby like protein 3 (TLP3) genes in drought and tubby like protein 1 (TLP1), thaumatin-like proteins (TLP), ethylene-responsive transcription factor ERF109 (EF109), ETS-Related transcription Factor (ELF4), and Arabidopsis thaliana homeodomain leucine-zipper gene (ATHB7) genes in salt showed the significant putative functions and pathways related to providing tolerance against drought and salt stress conditions along with the significant expression values. These outcomes provide potential candidate genes for further in-depth functional studies in cotton, which could be useful for the selection of an improved genotype of Gossypium hirsutum against drought and salt stress conditions.
Novel Cardiac Computed Tomography Methods for the Assessment of Anthracycline Induced Cardiotoxicity

Anthracyclines are among the most frequently utilized anti-cancer therapies; however, their use is frequently associated with off-target cardiotoxic effects. Cardiac computed tomography (CCT) is a validated and rapidly evolving technology for the evaluation of cardiac structures, coronary anatomy and plaque, cardiac function and preprocedural planning. However, with emerging new techniques, CCT is rapidly evolving to offer information beyond the evaluation of cardiac structure and epicardial coronary arteries to provide details on myocardial deformation, extracellular volume, and coronary vasoreactivity. The potential for molecular imaging in CCT is also growing. In the current manuscript we review these emerging computed tomography techniques and their potential role in the evaluation of anthracycline-induced cardiotoxicity.
Proteomic Analysis of Plasma Markers in Patients Maintained on Antipsychotics: Comparison to Patients Off Antipsychotics and Normal Controls

Background Schizophrenia (SZ) and bipolar disorder (BD) share many features: overlap in mood and psychotic symptoms, common genetic predisposition, treatment with antipsychotics (APs), and similar metabolic comorbidities. The pathophysiology of both is still not well defined, and no biomarkers can be used clinically for diagnosis and management. This study aimed to assess the plasma proteomics profile of patients with SZ and BD maintained on APs compared to those who had been off APs for 6 months and to healthy controls (HCs). Methods We analyzed the data using functional enrichment, random forest modeling to identify potential biomarkers, and multivariate regression for the associations with metabolic abnormalities. Results We identified several proteins known to play roles in the differentiation of the nervous system like NTRK2, CNTN1, ROBO2, and PLXNC1, which were downregulated in AP-free SZ and BD patients but were “normalized” in those on APs. Other proteins (like NCAM1 and TNFRSF17) were “normal” in AP-free patients but downregulated in patients on APs, suggesting that these changes are related to medication's effects. We found significant enrichment of proteins involved in neuronal plasticity, mainly in SZ patients on APs. Most of the proteins associated with metabolic abnormalities were more related to APs use than having SZ or BD. The biomarkers identification showed specific and sensitive results for schizophrenia, where two proteins (PRL and MRC2) produced adequate results. Conclusions Our results confirmed the utility of blood samples to identify protein signatures and mechanisms involved in the pathophysiology and treatment of SZ and BD.
Links Among Crop Diversification, Microbial Diversity, and Soil Organic Carbon: Mini Review and Case Studies

Interactions between species above- and belowground are among the top factors that govern ecosystem functioning including soil organic carbon (SOC) storage. In agroecosystems, understanding how crop diversification affects soil biodiversity and SOC storage at the local scale remains a key challenge for addressing soil degradation and biodiversity loss that plague these systems. Yet, outcomes of crop diversification for soil microbial diversity and SOC storage, which are key indicators of soil health, are not always positive but rather they are highly idiosyncratic to agroecosystems. Using five case studies, we highlight the importance of selecting ideal crop functional types (as opposed to focusing on plant diversity) when considering diversification options for maximizing SOC accumulation. Some crop functional types and crop diversification approaches are better suited for enhancing SOC at particular sites, though SOC responses to crop diversification can vary annually and with duration of crop cover. We also highlight how SOC responses to crop diversification are more easily interpretable through changes in microbial community composition (as opposed to microbial diversity). We then develop suggestions for future crop diversification experiment standardization including (1) optimizing sampling effort and sequencing depth for soil microbial communities and (2) understanding the mechanisms guiding responses of SOC functional pools with varying stability to crop diversification. We expect that these suggestions will move knowledge forward about biodiversity and ecosystem functioning in agroecosystems, and ultimately be of use to producers for optimizing soil health in their croplands.
Technological Innovation and Agrifood Systems Resilience: The Potential and Perils of Three Different Strategies

The interest in technological innovation has burgeoned in recent years. Theory and research support the vital role of innovative technologies in enhancing agrifood systems resilience. In this theoretical contribution, focusing on different sets of technologies, we present three technological innovation strategies, discuss their potential for strengthening resilience, and expose some open issues that need to be addressed. Responsible technological innovation arose as a response to the growing concerns about the possible unintended impacts of mega-technological trends, like digital farming tools or nanotechnologies, on agrifood systems. Although responsibly innovating is far from easy, and despite the gaps between theoretical ideals and innovation praxis, responsible technological innovation is a promising development since it can prevent counterintuitive effects of technologies on resilience. On the other hand, poly-innovation emerged as a social practice in which internetworking technologies facilitate—and create bundles with—organizational, social, and business innovation. In that strategy, technology represents a mediator of resilience-enhancing social behavior. However, by promoting the uberization of agrifood systems, poly-innovation is associated with various uncertainties. Finally, micro-innovation refers to the incremental adaptations of existing technologies or the development of new ones through bricolage and tinkering. The commercialization of such innovations through open design can increase the resilience of small-scale farming, especially in low-income countries. Nonetheless, the lack of financial resources, technical assistance, and institutional support hamper the full exploitation of micro-innovation.
The Interaction Between Autophagy and JAK/STAT3 Signaling Pathway in Tumors

Tumor is one of the important factors affecting human life and health in today’s world, and scientists have studied it extensively and deeply, among which autophagy and JAK/STAT3 signaling pathway are two important research directions. The JAK/STAT3 axis is a classical intracellular signaling pathway that assumes a key role in the regulation of cell proliferation, apoptosis, and vascular neogenesis, and its abnormal cell signaling and regulation are closely related to the occurrence and development of tumors. Therefore, the JAK/STAT3 pathway in tumor cells and various stromal cells in their microenvironment is often considered as an effective target for tumor therapy. Autophagy is a process that degrades cytoplasmic proteins and organelles through the lysosomal pathway. It is a fundamental metabolic mechanism for intracellular degradation. The mechanism of action of autophagy is complex and may play different roles at various stages of tumor development. Altered STAT3 expression has been found to be accompanied by the abnormal autophagy activity in many oncological studies, and the two may play a synergistic or antagonistic role in promoting or inhibiting the occurrence and development of tumors. This article reviews the recent advances in autophagy and its interaction with JAK/STAT3 signaling pathway in the pathogenesis, prevention, diagnosis, and treatment of tumors.
Atractylenolide-1 Targets FLT3 to Regulate PI3K/AKT/HIF1-α Pathway to Inhibit Osteogenic Differentiation of Human Valve Interstitial Cells

Atractylenolide-1 (AT-1), a natural active ingredient extracted from Atractylodes macrocephala, was reported to have good anti-fibrotic and anti-inflammatory effects. Osteogenic changes induced by the inflammation of valve interstitial cells (VICs) play a role in the development of calcified aortic valve disease (CAVD). This study aimed to investigate the anti-osteogenic effects of AT-1 in human VICs. Human VICs were exposed to osteogenic induction medium (OM) containing AT-1 to analyze cell viability, as well as protein and osteogenic gene expression. Anti-calcification tests were also performed. mRNA transcriptome sequencing was performed to identify differential genes and pathways regulated by AT-1. Western blotting was used to verify the enrichment pathway, protein-protein interaction (PPI) analysis was conducted to identify drug targets. Finally, molecular docking and inhibitors are used to verify the drug targets. Treatment of VICs with 20 μM AT-1 resulted in no significant cytotoxicity. The addition of AT-1 to OM prevented the accumulation of calcified nodules, and decreases in the level of (Alkaline Phosphatase) ALP and RUNX2 gene and protein expression were observed. Atractylenolide-1 can target FLT3 protein and inhibit the phosphorylation of FLT3, thereby blocking PI3K/AKT pathway activation, reducing the production of Hypoxia inducible factor(HIF)1-α, and inhibiting the osteogenic differentiation of VICs. These results suggest AT-1 as a potential drug for treating calcified aortic valve disease. Graphical Abstract
Ship Strike Risk for Fin Whales (Balaenoptera physalus) Off the Garraf coast, Northwest Mediterranean Sea

Ship strikes are a widespread conservation issue for many cetacean species globally. Population level impacts depend on the occurrence and severity of collisions, which may lead to life altering injuries or fatalities. Such impacts are a major concern for large, long-lived, and reproductively slow species like the fin whale. Since 2014, a seasonal feeding aggregation of fin whales has been monitored from February to June off the Catalan coast (Spain), in the northwest Mediterranean Sea. Oceanographical factors influence the occurrence and high density of krill within submarine canyons along the continental shelf, resulting in high whale abundance within a small spatial area. The study area extends 37 km offshore across a 1,944 km2 marine strip situated between the towns of Torredembarra and Castelldefels. This fin whale feeding ground is exposed to high density marine vessel traffic, given its location between the northern Mediterranean shipping lane, which links Barcelona and Tarragona Ports to the Atlantic Ocean and wider Mediterranean Basin. Ship strikes represent the greatest conservation threat for fin whales in the Mediterranean Sea. At least four fin whales have been found dead in Barcelona Port since 1986 due to ship strikes and seven live whales have been documented with injuries in the study area since 2018. Fin whale distribution was mapped with known high-risk marine vessels’ (cargo, tanker and passenger vessels) shipping lanes. Vessel density and shipping lanes characterised by speed were considered. Collision risk was estimated monthly based on the predicted fin whale occurrence and traffic density. Several shipping lanes crossed the fin whale feeding habitat every month with an average speed of 15 kn. Cargo vessels displayed the highest ship-strike risk during April, overlapping with the peak of fin whale sightings in the critical feeding area. Slower vessel speeds (8 kn) in waters <200 m depth or along the continental shelf should be implemented along the Catalan coast, during the whale season. These suggestions should be applied into the Barcelona Port transport separation scheme. Ship strike risk for this species will persist unless active management plans are adapted in the region to mitigate its risk.
Effects of Acute Hypoxia on Early Visual and Auditory Evoked Potentials

Reduced levels of environmental oxygen lead to hypoxic hypoxia and are a primary threat in tactical aviation. The visual system is particularly vulnerable to hypoxia, and its impairment can severely impact performance. The auditory system is relatively spared by hypoxia, although which stages of auditory processing are most impacted by hypoxia remains unclear. Previous work has used electroencephalography (EEG) to assess neural markers of cognitive processing for visual and auditory stimuli and found that these markers were sensitive to a normobaric hypoxic exposure. In the current study, we assessed whether early sensory evoked potentials, that precede cognitive activity, are also impaired by normobaric hypoxia. In a within-subjects design, we compared visual (P100) and auditory evoked potentials (sensory gating for the P50, N100, and P200) in 34 healthy adults during normoxic (21% O2) and two separate hypoxic (9.7% O2) exposures. Self-reported symptoms of hypoxia were also assessed using the Hypoxia Symptom Questionnaire (HSQ). We found that P100 mean amplitude was not reduced under hypoxic compared to normoxic conditions, suggesting no statistically significant impairment of early visual processing. The sensory gating ratio for auditory stimuli was intact for paired responses of the P50 and N100. However, the P200 sensory gating ratio was attenuated under hypoxic compared to normoxic conditions, suggesting disruption of the auditory system specific to the level of allocating attention that follows basic auditory processing. Exploratory analyses of HSQ scores identified a robust effect of hypoxia. However, consistency of symptoms reported between the two hypoxia exposures exhibited high intra-individual variability, which may have implications for the theory that individuals have a consistent hypoxia signature or reliable constellation of responses to hypoxia. These findings suggest that early sensory processing is not impaired during hypoxia, but for the auditory system there is impairment at the level of attentional processing. Given the previous findings of impaired visual performance under hypoxia, these results suggest that this impairment does not stem from early visual processing deficits in visual cortex. Together these findings help focus the search on when and where hypoxia-induced deficits occur and may guide the development of countermeasures for hypoxia in tactical aviation.
In-depth Benchmarking of Deep Neural Network Architectures for ECG Diagnosis

The electrocardiogram (ECG) is a widely used device to monitor the electrical activity of the heart. To diagnose various heart abnormalities, ECG diagnosis algorithms have been developed and deep neural networks (DNN) have been shown to achieve signiﬁcant performance. Most of the DNN architectures used for ECG diagnosis models are adopted from architectures developed for image or natural language domain, and their performances have improved year by year in the original domains. In this work, we conduct in-depth benchmarking of DNN architectures for ECG diagnosis. Using three datasets, we compared nine DNN architectures for both multi-label classiﬁcation settings evaluated with ROC-AUC score and multi-class classiﬁcation settings evaluated with F1 scores. The results showed that one of classical architectures, ResNet-18, performed consistently better over most of architectures, suggesting there is room for developing DNN architecture tailored for ECG domain.
Possible Lagged Impact of the Arctic Sea Ice in Barents–Kara Seas on June Precipitation in Eastern China

Based on the Hadley Centre sea ice concentration, the ERA5 reanalysis, and three precipitation datasets, the possible lagged impact of the Barents–Kara sea ice on June rainfall across China is investigated. Using the singular value decomposition, it is revealed that the state of sea ice concentration in Barents–Kara Seas from November to December is closely related to regional precipitation in June, which is most evident across the Yangtze–Huai Rivers Valley and South China. Possible pathways from preceding Arctic sea ice concentration to June precipitation are examined and discussed. First, the sea ice concentration usually has a long memory, which exerts a long-lasting and lagged impact, although the sea ice anomaly amplitude gradually weakens from early winter to early summer. Second, an increase in Barents–Kara sea ice usually corresponds to a stronger stratospheric polar vortex in midwinter by suppressing extratropical wave activities, which is projected to the positive phase of northern annular mode (NAM). Strong vortex gradually recovers to its normal state and even weakens in spring, which corresponds to the negative NAM response from spring to early summer. Third, the stratospheric anomalies associated with the Barents–Kara sea ice variations propagate downward. Due to the out-of-phase relationship between the lower and upper stratospheric circulation anomalies after midwinter, westerly anomalies in midwinter are followed by easterly anomalies in later months in the circumpolar region, consistent with the positive NAM response in midwinter, negative NAM response in spring, and a wave train-like response in early summer to Barents–Kara sea ice increase (and vice versa). The observed lagged impact of Barents–Kara sea ice on China rainfall in June is limitedly simulated in the ten CMIP6 models used in this study.
Mild, Organo-Catalysed Borono-Deamination as a Key to Late-Stage Pharmaceutical Precursors and 18F-Labelled Radiotracers

A tris(pentafluorophenyl)borane catalysed method for the synthesis of boronic acid esters from aromatic amines in yields of up to 93% was devised. Mild conditions, benign reagents, short reaction times, low temperatures and a wide substrate scope characterize the method. The reaction was found applicable to the synthesis of boronic acid ester derivatives of complex drug molecules in up to 86% isolated yield and high purity suitable for labelling. These boronates were subsequently labelled with [18F]fluoride ion in radiochemical yields of up to 55% with and even without isolation of the boronate-intermediate.