Miracle-dz/UniFAR-FTUs huggingface dataset:
Engineering Chirally Blind Protein Pseudo-Capsids into Antibacterial Persisters.

Antimicrobial resistance stimulates the search for antimicrobial forms that may be less subject to acquired resistance. Here we report a conceptual design of protein pseudo-capsids exhibiting a broad spectrum of antimicrobial activities. Unlike conventional antibiotics, these agents are effective against phenotypic bacterial variants, while clearing "superbugs" in vivo without toxicity. The design adopts an icosahedral architecture that is polymorphic in size, but not in shape, and that is available in both L and D epimeric forms. Using a combination of nanoscale and single-cell imaging we demonstrate that such pseudo-capsids inflict rapid and irreparable damage to bacterial cells. In phospholipid membranes they rapidly convert into nanopores, which remain confined to the binding positions of individual pseudo-capsids. This mechanism ensures precisely delivered influxes of high antimicrobial doses, rendering the design a versatile platform for engineering structurally diverse and functionally persistent antimicrobial agents.
Who is the Winner? Memristive-CMOS Hybrid Modules: CNN-LSTM Versus HTM

Hierarchical, modular and sparse information processing are signature characteristics of biological neural networks. These aspects have been the backbone of several artificial neural network designs of the brain-like networks, including Hierarchical Temporal Memory (HTM). The main contribution of this work is showing that Convolutional Neural Network (CNN) in combination with Long short term memory (LSTM) can be a good alternative for implementing the hierarchy, modularity and sparsity of information processing. To demonstrate this, we draw a comparison of CNN-LSTM and HTM performance on a face recognition problem with a small training set. We also present the analog CMOS-memristor circuit blocks required to implement such a scheme. The presented memristive implementations of the CNN-LSTM architecture are easier to i mplement, train and offer higher recognition performance than the HTM. The study also includes memristor variability and failure analysis.
Risk of Rapid Kidney Function Decline, All-Cause Mortality, and Major Cardiovascular Events in Nonalbuminuric Chronic Kidney Disease in Type 2 Diabetes

OBJECTIVE We aimed to investigate the rate of progression of nonalbuminuric chronic kidney disease (CKD) to end-stage kidney disease (ESKD) or death or major cardiovascular events (MACE) compared with albuminuric and nonalbuminuric phenotypes. RESEARCH DESIGN AND METHODS We included 10,185 participants with type 2 diabetes enrolled in the Action to Control Cardiovascular Risk in Diabetes (ACCORD) study. Based on baseline albuminuria and estimated glomerular filtration rate (eGFR), participants were classified as having no kidney disease (no CKD), albuminuria only (albuminuric non-CKD), reduced eGFR only (nonalbuminuric CKD), or both albuminuria and reduced eGFR (albuminuric CKD). The rate of eGFR decline and hazard ratios (HRs) for ESKD or death or MACE were calculated. RESULTS For individuals with no CKD and those with nonalbuminuric CKD, the rates of eGFR decline were −1.31 and −0.60 mL/min/year, respectively (P < 0.001). In competing-risks analysis (no CKD as the reference), HRs for ESKD indicated no increased risk for nonalbuminuric CKD (0.76 [95% CI 0.34, 1.70]) and greatest risk for albuminuric CKD (4.52 [2.91, 7.01]). In adjusted Cox models, HRs for death and MACE were highest for albumuniuric CKD (2.38 [1.92, 2.90] and 2.37 [1.89, 2.97], respectively) and were higher for albuminuric non-CKD (1.82 [1.59, 2.08] and 1.88 [1.63, 2.16], respectively) than for those with nonalbuminuric CKD (1.42 [1.14, 1.78] and 1.44 [1.13, 1.84], respectively). CONCLUSIONS Those with nonalbuminuric CKD showed a slower rate of decline in eGFR than did any other group; however, these individuals still carry a greater risk for death and MACE than do those with no CKD.
Curcumin improves asthenozoospermia by inhibiting reactive oxygen species reproduction through nuclear factor erythroid 2‐related factor 2 activation

We conducted this study for the purpose of evaluating the protective mechanisms of curcumin against oxidative stress in asthenozoospermic individuals. Asthenozoospermic individuals were grouped into AS group, curcumin treatment group and brusatol + curcumin treatment group. The sperm motility was measured by computer‐aided sperm analysis. We conducted flow cytometry and spectrophotometry to assess the levels of reactive oxygen species (ROS) and malondialdehyde (MDA). Chlortetracycline (CTC) was used to examine the acrosomal reaction of spermatozoa. Also, Western blotting was carried to measure antioxidant gene Nrf2 (nuclear factor erythroid 2‑related factor) expression level. As our results shown, treatment with curcumin significantly decreased ROS formation and MDA production, compared with spermatozoa of AS group; however, Nrf2 inhibitor, Brusatol, inhibited Nrf2 expression and sperm function. Our results have shown that curcumin might protect spermatozoa by regulating Nrf2 level.
Semisupervised Generative Autoencoder for Single-Cell Data

Single-cell transcriptomics offers a tool to study the diversity of cell phenotypes through snapshots of the abundance of mRNA in individual cells. Often there is additional information available besides the single-cell gene expression counts, such as bulk transcriptome data from the same tissue, or quantification of surface protein levels from the same cells. In this study, we propose models based on the Bayesian deep learning approach, where protein quantification, available as CITE-seq counts, from the same cells is used to constrain the learning process, thus forming a SemI-SUpervised generative Autoencoder (SISUA) model. The generative model is based on the deep variational autoencoder (VAE) neural network architecture.
The Electronic and Optical Properties of InSe-GeTe Heterobilayer via Applying Biaxial Strain

A comprehensive insight into the electronic and optical properties of small-lattice-mismatched InSe-GeTe heterobilayer (HBL) is performed based on the density functional theory (DFT) with van der Waals corrections from first-principles perspective. The optimization of most stable geometric stacking mode for the InSe-GeTe HBL is demonstrated. In addition, it is found that the InSe-GeTe HBL forms a type-II heterostructure of staggered-gap band alignment, resulting in an indirect band gap of 0.78 eV, which could be employed as a separator for electron-hole pairs. Moreover, the influence of biaxial strain on the electronic and optical properties of the InSe-GeTe HBL are systematically explored by calculating the band structures, density of states (PDOS), electron density differences, and optical absorption spectra of InSe-GeTe HBL under compressive and tensile biaxial strains. The results indicate that the electronic structures and optical performance of InSe-GeTe HBL could be modulated by changing the biaxial strain conveniently. Our findings provide new opportunities for the novel InSe-GeTe HBL to be applied in the electronic and optoelectronic fields.
Nitrate regulation of lateral root and root hair development in plants

Abstract Nitrogen (N) is one of the most important macronutrients for plant growth and development. However, the concentration and distribution of N varies in soil due to a variety of environmental factors. In response, higher plants have evolved a developmentally flexible root system to efficiently take up N under N-limited conditions. Over the past decade, significant progress has been made in understanding this form of plant ‘root-foraging’ behavior, which is controlled by both a local and a long-distance systemic nitrate signaling pathway. In this review, we focus on the key components of nitrate perception, signaling, and transduction and its role in lateral root development. We also highlight recent findings on the molecular mechanisms of the nitrate systemic signaling pathway, including small signaling peptides involved in long-distance shoot–root communication. Furthermore, we summarize the transcription factor networks responsible for nitrate-dependent lateral root and root hair development.
Reconstitution of the Jasmonate Signaling Pathway in Plant Protoplasts

The phytohormone jasmonic acid (JA) plays an important role in various plant developmental processes and environmental adaptations. The JA signaling pathway has been well-elucidated in the reference plant Arabidopsis thaliana. It starts with the perception of the active JA derivative, jasmonoyl-isoleucine (JA-Ile), by the F-box protein COI1 which is part of the E3-ligase SCFCOI1. Binding of JA-Ile enables the interaction between COI1 and JAZ repressor proteins. Subsequent degradation of JAZ proteins leads to the activation of transcription factors like e.g., MYC2. Here we demonstrate that the pathway can be reconstituted in transiently transformed protoplasts. Analysis of the stability of a JAZ1-fLuc fusion protein as a function of COI1 transiently expressed in coi1 protoplasts allows structure function analysis of both JAZs and COI1. Using this system, we found that conserved cysteines in COI1 influence steady state COI1 protein levels. Using a luciferase reporter gene under the control of the JAZ1 promoter enable to address those features of JAZ1 that are required for MYC2 repression. Interestingly, the conserved TIFY-motif previously described to interact with NINJA to recruit the corepressor TOPLESS is not necessary for repression. This result is in favor of the alternative repression mode that proposes a direct competition between repressive JAZs and promotive MEDIATOR25 at MYC2. Finally, using protoplasts from the aos coi1 double mutant, which is deficient in JA synthesis and perception, we provide a system that has the potential to study the activity of different COI1 variants in the presence of different ligands.
A Survey of Teleceptive Sensing for Wearable Assistive Robotic Devices

Teleception is defined as sensing that occurs remotely, with no physical contact with the object being sensed. To emulate innate control systems of the human body, a control system for a semi- or fully autonomous assistive device not only requires feedforward models of desired movement, but also the environmental or contextual awareness that could be provided by teleception. Several recent publications present teleception modalities integrated into control systems and provide preliminary results, for example, for performing hand grasp prediction or endpoint control of an arm assistive device; and gait segmentation, forward prediction of desired locomotion mode, and activity-specific control of a prosthetic leg or exoskeleton. Collectively, several different approaches to incorporating teleception have been used, including sensor fusion, geometric segmentation, and machine learning. In this paper, we summarize the recent and ongoing published work in this promising new area of research.
Identification for Exploring Underlying Pathogenesis and Therapy Strategy of Oral Squamous Cell Carcinoma by Bioinformatics Analysis

Background Oral squamous cell carcinoma (OSCC), one of the most common cavity-associated cancers, has a high incidence and worldwide mortality. However, the cause and underlying molecular mechanisms of OSCC remain unclear. Material/Methods Three microarray datasets (GSE23558, GSE34105, and GSE74530) from the Gene Expression Omnibus (GEO) database were downloaded and then integrated to gain differentially expressed genes (DEGs). We performed Gene Ontology (GO) analysis and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichments of DEGs in order to elucidate DEGs’ biological roles. Protein-protein interaction (PPI) networks were established in order to identify hub genes. To validate the gene markers for OSCC, the data of TCGA OSCC were also assessed. Results Together, 651 DEGs containing 288 upregulated genes and 363 downregulated genes were screened out, which could completely distinguish between OSCC and normal control tissues by principal component analysis (PCA). The GO analysis indicated the DEGs were enriched in chemokine activity in the biological process group. The molecular functions of DEGs included growth factor activity. The molecular functions included oxidoreductase activity. The main DEG-associated cellular components included extracellular exosome. The KEGG pathway analysis indicated the DEGs were mainly participated in the cytokine-cytokine receptor interaction, metabolism of xenobiotics by cytochrome P450 and glutathione metabolism signal pathway. The co-expression network identified core genes from the PPI network. Additionally, Kaplan-Meier survival analysis showed that CSF2 and EGF genes were significantly correlated with OSCC patients’ overall survival. Conclusions Our study using an integrated bioinformatics analysis might provide valuable information for exploring potential new molecular biomarkers and therapeutic targets for OSCC.
Classification of Drowsiness Levels Based on a Deep Spatio-Temporal Convolutional Bidirectional LSTM Network Using Electroencephalography Signals

Non-invasive brain-computer interfaces (BCI) have been developed for recognizing human mental states with high accuracy and for decoding various types of mental conditions. In particular, accurately decoding a pilot’s mental state is a critical issue as more than 70% of aviation accidents are caused by human factors, such as fatigue or drowsiness. In this study, we report the classification of not only two mental states (i.e., alert and drowsy states) but also five drowsiness levels from electroencephalogram (EEG) signals. To the best of our knowledge, this approach is the first to classify drowsiness levels in detail using only EEG signals. We acquired EEG data from ten pilots in a simulated night flight environment. For accurate detection, we proposed a deep spatio-temporal convolutional bidirectional long short-term memory network (DSTCLN) model. We evaluated the classification performance using Karolinska sleepiness scale (KSS) values for two mental states and five drowsiness levels. The grand-averaged classification accuracies were 0.87 (±0.01) and 0.69 (±0.02), respectively. Hence, we demonstrated the feasibility of classifying five drowsiness levels with high accuracy using deep learning.
The effect of spiral trajectory correction on pseudo‐continuous arterial spin labeling with high‐performance gradients on a compact 3T scanner

To demonstrate the feasibility of pseudo‐continuous arterial‐spin–labeled (pCASL) imaging with 3D fast‐spin‐echo stack‐of‐spirals on a compact 3T scanner (C3T), to perform trajectory correction for eddy‐current–induced deviations in the spiral readout of pCASL imaging, and to assess the correction effect on perfusion‐related images with high‐performance gradients (80 mT/m, 700T/m/s) of the C3T.
Facilitators and barriers to participation in lifestyle modification for men with prostate cancer: A scoping review.

PURPOSE Diet and physical activity changes have been shown to improve quality of life and health outcomes for prostate cancer (PC) survivors; however, few survivors make lifestyle changes. We aimed to identify PC-specific facilitators and barriers to dietary and physical activity changes and participation in survivorship-based lifestyle management programmes. METHODS A scoping review investigating facilitators and barriers of PC survivor's participation in lifestyle management programmes was conducted in June 2018. A total of 454 studies were identified, 45 studies were assessed in full, and 16 were included in the scoping review. RESULTS Barriers to lifestyle change included perceived lack of evidence for lifestyle guidelines, treatment side effects, perception of change as unnecessary, time pressure and age. Facilitators for lifestyle change included advice from health professionals, support systems (family and peer), diagnosis as a time for change, lifestyle as a coping strategy to manage side effects and improve well-being. CONCLUSIONS Health professionals, peers and family have a significant role in lifestyle management for PC survivors to facilitate engagement. Specific and clear messaging of the benefits of lifestyle management is warranted. Treatment-related side effects, time pressure, current health perception and age should be considered when developing lifestyle management programmes for PC survivors.
UV-Vis Spectroelectrochemistry of Oleuropein, Tyrosol, and p-Coumaric Acid Individually and in an Equimolar Combination. Differences in LC-ESI-MS2 Profiles of Oxidation Products and Their Neuroprotective Properties

Major phenolic compounds from olive oil (ArOH-EVOO), oleuropein (Ole), tyrosol (Tyr), and p-coumaric acid (p-Cou), are known for their antioxidant and neuroprotective properties. We previously demonstrated that their combination could potentiate their antioxidant activity in vitro and in cellulo. To further our knowledge of their electron-transfer properties, Ole, Tyr, and p-Cou underwent a spectroelectrochemical study, performed either individually or in equimolar mixtures. Two mixtures (Mix and Mix-seq) were prepared in order to determine whether distinct molecules could arise from their simultaneous or sequential oxidation. The comparison of Liquid Chromatography–Electrospray Ionization–Tandem Mass Spectrometry (LC-ESI-MS2) profiles highlighted the presence of specific oxidized products found in the mixes. We hypothesized that they derived from the dimerization between Tyr and Ole or p-Cou, which have reacted either in their native or oxidized forms. Moreover, Ole regenerates when the Mix undergoes oxidation. Our study also showed significant neuroprotection by oxidized Ole and oxidized Mix against H2O2 toxicity on SK-N-SH cells, after 24 h of treatment with very low concentrations (1 and 5 nM). This suggests the putative relevant role of oxidized Ole products to protect or delay neuronal death.
Current experiences of accessing and using HIV pre-exposure prophylaxis (PrEP) in the United Kingdom: a cross-sectional online survey, May to July 2019

The 2019 online pre-exposure prophylaxis (PrEP) user survey in the United Kingdom was conducted to assess HIV PrEP access, and user characteristics. One in five respondents continued experiencing difficulties accessing PrEP; users were almost exclusively gay or bisexual men at high risk of HIV. The majority obtained PrEP through health service clinics and rated PrEP positively. High STI rates were reported among users. Renal and sexual health checks are advised for those sourcing PrEP privately.
Corpora amylacea act as containers that remove waste products from the brain

Significance Aging and neurodegenerative processes induce the formation of waste substances in the brain. Some of these substances accumulate in corpora amylacea (CA). We reveal that CA are released from the brain into the cerebrospinal fluid and are present in the cervical lymph nodes, into which cerebrospinal fluid drains through the meningeal lymphatic system. We also show that CA can be phagocytosed by macrophages. We conclude that CA can act as waste containers and hypothesize that CA are involved in a mechanism that cleans the brain. We also postulate that CA may contain clinical markers of brain disorders and may also play significant roles in some brain autoimmune diseases. These last points merit further study due to their possible clinical implications. Corpora amylacea (CA) in the human brain are granular bodies formed by polyglucosan aggregates that amass waste products of different origins. They are generated by astrocytes, mainly during aging and neurodegenerative conditions, and are located predominantly in periventricular and subpial regions. This study shows that CA are released from these regions to the cerebrospinal fluid and are present in the cervical lymph nodes, into which cerebrospinal fluid drains through the meningeal lymphatic system. We also show that CA can be phagocytosed by macrophages. We conclude that CA can act as containers that remove waste products from the brain and may be involved in a mechanism that cleans the brain. Moreover, we postulate that CA may contribute in some autoimmune brain diseases, exporting brain substances that interact with the immune system, and hypothesize that CA may contain brain markers that may aid in the diagnosis of certain brain diseases.
Cellulose Nanopaper Cross-Linked Amino Graphene/Polyaniline Sensors to Detect CO2 Gas at Room Temperature

A nanocomposite of cross-linked bacterial cellulose–amino graphene/polyaniline (CLBC-AmG/PANI) was synthesized by covalent interaction of amino-functionalized graphene (AmG) AmG and bacterial cellulose (BC) via one step esterification, and then the aniline monomer was grown on the surface of CLBC-AmG through in situ chemical polymerization. The morphological structure and properties of the samples were characterized by using scanning electron microscopy (SEM), and thermal gravimetric analyzer (TGA). The CLBC-AmG/PANI showed good electrical-resistance response toward carbon dioxide (CO2) at room temperature, compared to the BC/PANI nanopaper composites. The CLBC-AmG/PANI sensor possesses high sensitivity and fast response characteristics over CO2 concentrations ranging from 50 to 2000 ppm. This process presents an extremely suitable candidate for developing novel nanomaterials sensors owing to easy fabrication and efficient sensing performance.
Recent Developments of the Solution-Processable and Highly Conductive Polyaniline Composites for Optical and Electrochemical Applications

Solution-processable conducting polymers (CPs) are an effective means for producing thin-film electrodes with tunable thickness, and excellent electrical, electrochemical, and optical properties. Especially, solution-processable polyaniline (PANI) composites have drawn a great deal of interest due to of their ease of film-forming, high conductivity up to 103 S/cm, excellent redox behaviors, processability, and scalability. In this review, basic principles, fabrication methods, and applications of solution-processable PANI composites will be discussed. In addition, recent researches on the PANI-based electrodes for solar cells (SCs), electrochromic (EC) windows, thermoelectric (TE) materials, supercapacitors, sensors, antennas, electromagnetic interference (EMI) shielding, organic field-effect transistors (OFETs), and anti-corrosion coatings will be discussed. The presented examples in this review will offer new insights in the design and fabrication of high-performance electrodes from the PANI composite solutions for the development of thin-film electrodes for state-of-art applications.
Microglial cell‐derived interleukin‐6 influences behavior and inflammatory response in the brain following traumatic brain injury

Traumatic brain injury (TBI) is a major health problem with high rates of mortality and morbidity worldwide. The response of the brain to TBI is orchestrated by a number of cytokines, including interleukin‐6 (IL‐6). IL‐6 is a major cytokine in the central nervous system and it is produced by different cells, such as neurons, glial cells, and endothelial cells. Since glial cells are one of the most important sources and targets of IL‐6, we have examined the role of microglia‐derived IL‐6 in normal conditions and following a model of TBI, cryolesion of the somatosensorial cortex. To this end, tamoxifen‐inducible microglial IL‐6‐deficient (Il6ΔMic, using Cx3cr1 CreER model) mice and control (Il6lox/lox) mice were used. In normal conditions, microglial IL‐6 deficiency reduced deambulation and exploratory behavior and decreased anxiety in a sex‐dependent manner. The transcriptome profile following cryolesion was dramatically altered 1 day post‐lesion in Il6ΔMic compared with Il6lox/lox mice. However, the phenotype of Il6ΔMic mice was less compromised in the following days, suggesting that compensatory mechanisms are at play.