Miracle-dz/UniFAR-FTUs huggingface dataset:
A Phase Change Material for Reconfigurable Circuit Applications

The large resistance contrast between amorphous and crystalline states of phase change materials (PCM) makes them a promising candidate for data-storage applications. Germanium telluride (GeTe), an early member of the PCM family, shows ~6 orders of magnitude difference in resistivity upon phase transition. In this paper, two different heating methods, direct (Joule) and indirect thermal heating, were applied to induce a phase transition in vertical and horizontal GeTe resistors. In the electrical measurements, it was observed that thermal heating produces a two orders of magnitude larger difference in GeTe resistivity that the Joule heating, irrespective of the resistor’s geometry and orientation. It was also found that the large inter-electrode distances in horizontal resistors make them impractical for low voltage applications. In addition, a correlation in between crystallization voltage and resistor’s geometrical parameters (i.e., inter-electrode distance and cross-sectional area) was also established. Here, it was found that the threshold voltage increases with resistor length, while it remains unaffected with a change in cross-sectional area. This work provides design guidelines to make use of not only GeTe but also other phase change materials in reconfigurable circuit applications.
Maternal consumption of high-prebiotic fibre or -protein diets during pregnancy and lactation differentially influences satiety hormones and expression of genes involved in glucose and lipid metabolism in offspring in rats

Risk of developing the metabolic syndrome may be influenced by nutritional environment early in life. We examined the effects of high-fibre (HF) and high-protein (HP) diets consumed during pregnancy and lactation on satiety hormones and expression of genes involved in glucose and lipid metabolism in offspring. Wistar dams were fed a control (C), HF or HP diets during pregnancy and lactation. At parturition, litters were culled to ten pups. At 21 d, all pups were weaned onto C diet. At 7, 14, 21, 28 and 35 d after birth, blood was analysed for satiety hormones and tissues for mRNA expression in offspring. No differences were observed in litter size or birth weight. At 21 d, offspring of HF dams had greater adjusted intestinal mass and lower liver weight than those of C but not of HP dams. Plasma glucose at 28 d and amylin at 7, 14 and 28 d were lower in HF v. C and HP offspring. Glucagon-like peptide-1 was higher in HP offspring than in HF offspring at 7 d but was higher in HF v. C offspring at 21 d. Offspring of HF dams had higher glucose transporter (GLUT2 and Na+-dependent glucose/galactose transporter) mRNA expression at 21 d v. C and HP offspring. In brown adipose tissue, HF and HP up-regulated uncoupling protein-1 and PPAR-γ coactivator. HP was associated with increased resistin and IL-6 mRNA expression. The present study demonstrates that maternal diet composition differentially regulates circulating satiety hormones and genes involved in glucose transport and energy metabolism in offspring. These early changes could have long-term consequences for obesity risk.
Histamine H4 receptor agonist‐induced relief from painful peripheral neuropathy is mediated by inhibition of spinal neuroinflammation and oxidative stress

Neuropathic pain is under‐treated, with a detrimental effect on quality of life, partly because of low treatment efficacy, but also because pathophysiological mechanisms are not fully elucidated. To clarify the pathobiology of neuropathic pain, we studied the contribution of neuroinflammation and oxidative stress in a model of peripheral neuropathy. We also assessed an innovative treatment for neuropathic pain by investigating the effects of histamine H4 receptor ligands in this model.
Prognostic value of PDL1 expression in pancreatic cancer

Pancreatic cancer is one of the most aggressive human cancers. PD1/PDL1-inhibitors recently showed promising results in different cancers with correlation between PDL1 tumor expression and responses. Expression of programmed cell death receptor ligand 1 (PDL1) has been scarcely studied in pancreatic cancer. In this retrospective study, we analyzed PDL1 mRNA expression in 453 clinical pancreatic cancer samples profiled using DNA microarrays and RNASeq. Compared to normal pancreatic samples, PDL1 expression was upregulated in 19% of cancer samples. Upregulation was not associated with clinicopathological features such as patients' age and sex, pathological type, tumor size, lymph node status, and grade, but was associated with shorter disease-free survival and overall survival in multivariate analyses. Analysis of correlations with biological parameters showed that PDL1 upregulation was associated with some degree of lymphocyte infiltration and signs of anti-tumor T-cell response, but to a lesser extent than what has been reported in breast cancer and GIST. PDL1-up pancreatic cancers displayed profiles of lymphocyte exhaustion, were more enriched in inhibitory molecules and pro-tumor populations (Tregs with upregulation of FOXP3 and IL10, myeloid-derived suppressor cells with upregulation of CD33 and S100A8/A9), and demonstrated a down-modulation of most MHC class I members (HLA-A/B/C, HLA-E/F/G) suggestive of a defect in antigen processing and presentation. In conclusion, our results suggest that PDL1 expression might refine the prediction of metastatic relapse in operated pancreatic cancer, and that PD1/PDL1 inhibitors might reactivate inhibited T-cells to increase the anti-tumor immune response in PDL1-upregulated tumors.
Incremental techniques in direct composite restoration

Polymerization shrinkage is one of the dental clinician's main entanglements when placing resin-based composite restorations. None of the method can assure a perfectly sealed restoration for adhesive restorative materials; clinicians must abode problems of polymerization shrinkage and its possible ill effects. The objective of this article is to review different incremental techniques that can ruin the polymerization shrinkage stress of direct composite restoration.
Development of Polypropylene Plank Foam Products

Low-density plank foam products were developed from both conventional and high melt strength (HMS) polypropylene resins. Bubble stability was achieved by making the foam density low and the cell size small. The use of a multiple-orifice die with an optional use of forming yielded a plank foam product with a large cross-sectional size.
Resistance to cigarette smoke is increased in periodontal ligament cells by attachment to collagen and fibronectin.

BACKGROUND The toxic effects of cigarette smoke often presents in smokers as increased incidence and severity of periodontal disease. These patients demonstrate symptomatic inflammation, increased probing depth, and tooth loss likely attributable to the direct effects of cigarette smoke on periodontal ligament (PDL) fibroblasts. The goal of this in vitro study is to investigate the direct effects of smoking on PDL fibroblasts, focusing on cell-extracellular matrix (ECM) interactions and cell survival. METHODS PDL cells were plated for various times on tissue culture plastic, PDL-derived ECMs, collagen Type I, or fibronectin. Cells were exposed to various concentrations of cigarette smoke extract (CSE) at different times during the cell attachment process. Subsequently, cell survival was quantified using calcein-acetoxymethyl ester compound and a fluorescent plate reader. RESULTS After exposure to CSE, PDL cell survival increased with increased cell attachment time to plastic. These observations were independent of soluble factors present in PDL cell-conditioned media. PDL-derived ECMs and collagen Type I-pretreated plates promoted increased cell survival after 1 day of cell attachment. Fibronectin-pretreated plates demonstrated increased cell survival after 3 days of cell attachment. CONCLUSIONS Cell-ECM interactions increase survival of PDL cells exposed to CSE. It is suggested that the increased survival is attributable to PDL cells altering their ECM, potentially by depositing collagen and fibronectin. This may imply that cells embedded in an ECM would be more resistant to the toxic effects of cigarette smoke, leading to increased cell death near the exposed edges of a wound.
KiPho: malaria parasite kinome and phosphatome portal

Abstract The Plasmodium kinases and phosphatases play an essential role in the regulation of substrate reversible-phosphorylation and overall cellular homeostasis. Reversible phosphorylation is one of the key post-translational modifications (PTMs) essential for parasite survival. Thus, a complete and comprehensive information of malarial kinases and phosphatases as a single web resource will not only aid in systematic and better understanding of the PTMs, but also facilitate efforts to look for novel drug targets for malaria. In the current work, we have developed KiPho, a comprehensive and one step web-based information resource for Plasmodium kinases and phosphatases. To develop KiPho, we have made use of search methods to retrieve, consolidate and integrate predicted as well as annotated information from several publically available web repositories. Additionally, we have incorporated relevant and manually curated data, which will be updated from time to time with the availability of new information. The KiPho (Malaria Parasite Kinome—Phosphatome) resource is freely available at http://bioinfo.icgeb. res.in/kipho.
Risk estimation for driving support and behavior planning in intelligent vehicles

Abstract Vehicles will be equipped with sensors and functions for highly automated driving in the foreseeable future. A big topic of research on the way to this goal is how to convey to these vehicles an understanding of the driving situations that is comparable to that of humans. For safe driving, this requires predicting how a scene will evolve and anticipating how dangerous it will potentially be. Risk estimation is a central ingredient in this process. In this paper, we describe how risk modeling frameworks help in managing the complexity of the driving task. We approach risk from the perspective of rare probabilistic events in environments where predictions might be inherently uncertain, and explain how this leads to a survival-based formulation which allows to model different types of risks encountered in driving situations within a single unified concept. In addition, we show how the framework can be used for driving behavior evaluation and risk-avoiding trajectory planning.
Dynamic Functional Connectivity in Bipolar Disorder Is Associated With Executive Function and Processing Speed: A Preliminary Study

Objective: Disturbances in functional connectivity have been suggested to contribute to cognitive and emotion processing deficits observed in bipolar disorder (BD). Functional connectivity between medial prefrontal cortex (mPFC) and other brain regions may be particularly abnormal. The goal of the present study was to characterize the temporal dynamics of the default mode network (DMN) connectivity in BD and examine its association with cognition. Method: In a preliminary study, euthymic BD (n = 15) and healthy comparison (HC, n = 19) participants underwent resting-state functional MRI, using high-resolution sequences adapted from the Human Connectome Project, and completed neuropsychological measures of processing speed and executive function. A seed-based approach was used to measure DMN correlations in each participant, with regions of interest in the mPFC, posterior cingulate cortex (PCC), and lateral parietal cortex. Subsequently, to characterize temporal dynamics, correlational analyses between the mPFC and other DMN nodes were repeated using a sliding-window correlational analysis with subsets of the time series. Results: When averaged across the entire scan, there were no group differences in overall connectivity strength between the mPFC and other regions of the DMN. However, dynamic connectivity between the mPFC and PCC was altered in BD, such that connectivity was less variable (i.e., more rigid) over time. Decreased connectivity variability was associated with slower processing speed and reduced cognitive set-shifting in BD patients. Conclusions: Variability in resting-state functional connectivity may be an index of internetwork flexibility that is reduced in BD and a correlate of ongoing cognitive impairment during periods of euthymia.
Quantile regression for genome-wide association study of flowering time-related traits in common bean

Flowering is an important agronomic trait. Quantile regression (QR) can be used to fit models for all portions of a probability distribution. In Genome-wide association studies (GWAS), QR can estimate SNP (Single Nucleotide Polymorphism) effects on each quantile of interest. The objectives of this study were to estimate genetic parameters and to use QR to identify genomic regions for phenological traits (Days to first flower—DFF; Days for flowering—DTF; Days to end of flowering—DEF) in common bean. A total of 80 genotypes of common beans, with 3 replicates were raised at 4 locations and seasons. Plants were genotyped for 384 SNPs. Traditional single-SNP and 9 QR models, ranging from equally spaced quantiles (τ) 0.1 to 0.9, were used to associate SNPs to phenotype. Heritabilities were moderate high, ranging from 0.32 to 0.58. Genetic and phenotypic correlations were all high, averaging 0.66 and 0.98, respectively. Traditional single-SNP GWAS model was not able to find any SNP-trait association. On the other hand, when using QR methodology considering one extreme quantile (τ = 0.1) we found, respectively 1 and 7, significant SNPs associated for DFF and DTF. Significant SNPs were found on Pv01, Pv02, Pv03, Pv07, Pv10 and Pv11 chromosomes. We investigated potential candidate genes in the region around these significant SNPs. Three genes involved in the flowering pathways were identified, including Phvul.001G214500, Phvul.007G229300 and Phvul.010G142900.1 on Pv01, Pv07 and Pv10, respectively. These results indicate that GWAS-based QR was able to enhance the understanding on genetic architecture of phenological traits (DFF and DTF) in common bean.
An Integrated Workflow To Assess Technical and Biological Variability of Cell Population Frequencies in Human Peripheral Blood by Flow Cytometry

In the context of large-scale human system immunology studies, controlling for technical and biological variability is crucial to ensure that experimental data support research conclusions. In this study, we report on a universal workflow to evaluate both technical and biological variation in multiparameter flow cytometry, applied to the development of a 10-color panel to identify all major cell populations and T cell subsets in cryopreserved PBMC. Replicate runs from a control donation and comparison of different gating strategies assessed the technical variability associated with each cell population and permitted the calculation of a quality control score. Applying our panel to a large collection of PBMC samples, we found that most cell populations showed low intraindividual variability over time. In contrast, certain subpopulations such as CD56 T cells and Temra CD4 T cells were associated with high interindividual variability. Age but not gender had a significant effect on the frequency of several populations, with a drastic decrease in naive T cells observed in older donors. Ethnicity also influenced a significant proportion of immune cell population frequencies, emphasizing the need to account for these covariates in immune profiling studies. We also exemplify the usefulness of our workflow by identifying a novel cell-subset signature of latent tuberculosis infection. Thus, our study provides a universal workflow to establish and evaluate any flow cytometry panel in systems immunology studies.
DNA-GAN: Learning Disentangled Representations from Multi-Attribute Images

Disentangling factors of variation has become a very challenging problem on representation learning. Existing algorithms suffer from many limitations, such as unpredictable disentangling factors, poor quality of generated images from encodings, lack of identity information, etc. In this paper, we propose a supervised learning model called DNA-GAN which tries to disentangle different factors or attributes of images. The latent representations of images are DNA-like, in which each individual piece (of the encoding) represents an independent factor of the variation. By annihilating the recessive piece and swapping a certain piece of one latent representation with that of the other one, we obtain two different representations which could be decoded into two kinds of images with the existence of the corresponding attribute being changed. In order to obtain realistic images and also disentangled representations, we further introduce the discriminator for adversarial training. Experiments on Multi-PIE and CelebA datasets finally demonstrate that our proposed method is effective for factors disentangling and even overcome certain limitations of the existing methods.
Photoacoustic blood vessel detection during surgical laser interventions

This paper presents a discussion about the potential of photoacoustics with regard to its application in surgical assistance during minimally invasive, laser assisted interventions. Aim of the work is the detection of obscured large blood vessels in order to prevent unintentional dissection. Based on spectroscopic investigations of the target tissue (liver), a wavelength for the photoacoustic excitation laser was chosen with respect to a high absorption contrast between the vessel and the surrounding liver tissue. An experimental setup featuring a simple liver model is created. Preliminary results show, that vessels with a diameter of 2 mm can be detected up to a distance of 1 mm from the treatment fibre. It is shown, that detection of acoustic waves induced inside liver is feasible over distances higher than 10 cm.
An adaptive particle swarm optimization algorithm based on optimal parameter regions

The performance of the particle swarm optimization (PSO) algorithm is known to be sensitive to the values of its control parameters. Parameter tuning is thus an important aspect in optimizing PSO performance. While many studies have examined a variety of PSO parameters and have provided general-purpose parameter suggestions, a recent study has shown that the best parameters to employ are, in fact, time-dependent. Furthermore, a priori parameter tuning is a time-consuming procedure and assumes that the best parameters to employ do not change over time. This study proposes a new PSO variant which randomly samples its control parameter values from a region known to contain promising parameter configurations, thereby eliminating the need to specify (and tune) values for the traditional PSO control parameters. The new PSO variant is compared to PSO employing 14 different parametrizations suggested in the literature. Results indicate that the performance of the proposed variant is on par with the best parameter configurations suggested in the literature.
Complete Genome Sequence of Escherichia coli ML35

ABSTRACT We report here the complete genome sequence of Escherichia coli strain ML35. We assembled PacBio reads into a single closed contig with 169× mean coverage and then polished this contig using Illumina MiSeq reads, yielding a 4,918,774-bp sequence with 50.8% GC content.
Mechanism for Developing the Boundary Barrier Layers of CaCu3Ti4O12

CaCu 3 Ti 4 O 12 (CCTO) was prepared by solid-state reaction and identified by X-ray diffractometry. The evolution of the microstructure was observed by scanning electron microscopy (SEM). It was found that discontinuous grain growth developed during sintering, and large abnormal grains played a very significant role in the dielectric behavior. Cu ions segregated to the boundaries and CuO located at the triple-point sites of the abnormal large grains were observed by electron energy loss and energy-dispersive X-ray spectroscopy, respectively. Moreover, two kinds of morphologies, i.e., terraces with ledges and bump domains, were discovered inside the grains under the thermal etching conditions at 960°C for 72 min, which solves the contradiction related to the interpretation of the giant dielectric response between ceramic and single-crystal CCTO. Complex impedance spectroscopy was used to analyze the conductivity of ceramic CCTO, which suggests that it consists of conducting domains with two kinds of insulating barrier layers of domain and grain boundaries. The insulating domain and grain boundaries were attributed to orderly arranged dislocations and segregation of Cu ions, respectively. The conduction of CCTO was found to be related to the porosity, the grain size, and the thickness of the insulating boundary layers. For a sample sintered at 1065°C for 3 h, the anomalously low resistivity and temperature-dependent dielectric constant were due to the fact that domain boundaries were not substantially formed. The possible reasons for the development of barrier layers and the variation of the dielectric constant with the sintering time are discussed. A barrier-layer model with dielectric response based on the Maxwell-Wagner type of relaxation for ceramic CCTO is proposed. Two kinds of dielectric responses occur, depending on the microstructure: they are dominated by the domain and domain boundary and by the grain and grain boundary for large grains and fine grains, respectively.
Performance and properties of mould fluxes

Abstract The role of mould fluxes in continuous casting is reviewed. The main functions of the flux are described and the importance of the flux in providing lubrication and the right level of heat transfer between the shell and the mould is described. The major problems of longitudinal, transverse and star cracking, gas and slag entrapment and deep oscillation marks in the steel product and 'sticker breakouts' are analysed. The important physical properties of the flux in combating these various problems are identified. Physical property data for the fluxes are given.