Miracle-dz/UniFAR-FTUs huggingface dataset:
An Erythrocyte Membrane-Associated Antigen, PvTRAg-26 of Plasmodium vivax: A Study of Its Antigenicity and Immunogenicity

Background: Plasmodium tryptophan-rich (TR) proteins have been proposed as potential vaccine candidate antigens. Among them, P. vivax tryptophan-rich antigens (PvTR-Ags), which have positionally conserved tryptophan residues in a TR domain, are highly antigenic in humans. Several of these antigens, including PvTRAg-26, have exhibited erythrocyte-binding activities. Methods: Subclasses of IgG antibodies against PvTRAg-26 were detected by enzyme-linked immunosorbent assay in 35 P. vivax infected patients and mice immunized with the recombinant antigen to characterize its antigenicity and immunogenicity. Moreover, the antigen-specific immune responses and Th1/Th2-type cytokine patterns of splenocytes from the immunized animals were determined in vitro. The subcellular localization of PvTRAg-26 in ring-stage parasites was also detected by indirect immunofluorescence assay. Results: The IgG1 and IgG3 levels in P. vivax-infected patients were significantly higher than those in uninfected individuals. In the PvTRAg-26-immunized mice, elevated levels of antigen-specific IgG antibodies were observed, dominated by the IgG1 subclass, and Th1-type cytokines were remarkably increased compared with Th2-type cytokines. Additionally, the subcellular location of the PvTRAg-26 protein was closely associated with the caveola-vesicle complex on the infected-erythrocyte membrane in the early ring stage of P. vivax. Conclusions: PvTRAg-26, a P. vivax TR antigen, with high antigenicity and immunogenicity, induces Th1-cytokine response and increases production of IgG1 antibodies. This immune profiling study provided a substantial evidence that PvTRAg-26 may be a potential candidate for P. vivax vaccine development.
Nonspecific Expression in Limited Excitatory Cell Populations in Interneuron-Targeting Cre-driver Lines Can Have Large Functional Effects

Transgenic Cre-recombinase expressing mouse lines are widely used to express fluorescent proteins and opto-/chemogenetic actuators, making them a cornerstone of modern neuroscience. The investigation of interneurons in particular has benefitted from the ability to genetically target specific cell types. However, the specificity of some Cre driver lines has been called into question. Here, we show that nonspecific expression in a subset of hippocampal neurons can have substantial nonspecific functional effects in a somatostatin-Cre (SST-Cre) mouse line. Nonspecific targeting of CA3 pyramidal cells caused large optogenetically evoked excitatory currents in remote brain regions. Similar, but less severe patterns of nonspecific expression were observed in a widely used SST-IRES-Cre line, when crossed with a reporter mouse line. Viral transduction on the other hand yielded more specific expression but still resulted in nonspecific expression in a minority of pyramidal layer cells. These results suggest that a careful analysis of specificity is mandatory before the use of Cre driver lines for opto- or chemogenetic manipulation approaches.
A Treg-Selective IL-2 Mutein Prevents the Formation of Factor VIII Inhibitors in Hemophilia Mice Treated With Factor VIII Gene Therapy

Hemophilia A is a genetic disorder that results in the deficiency of functional factor VIII protein, which plays a key role in blood coagulation. Currently, the majority of hemophilia A patients are treated with repeated infusions of factor VIII protein. Approximately 30% of severe hemophilia A patients develop neutralizing antibodies to factor VIII (known as factor VIII inhibitors) due to treatment, rendering factor VIII protein infusions ineffective. Previously, mice receiving murine IL-2 complexed with α-murine IL-2 mAbs (JES6-1A12) showed a lack of factor VIII inhibitor formation after factor VIII treatment, which was associated with the proliferation and the activation of factor VIII-specific regulatory T cells (Tregs). In this paper, we evaluated if an Fc-fused mutated protein analog of mouse IL-2, named Fc.Mut24, engineered to selectively promote the expansion of Tregs in vivo can modulate factor VIII-specific immune responses. The mice received one intraperitoneal injection of Fc.Mut24. When the regulatory T cell population reached its highest frequency and peak activation, the mice received a hydrodynamic injection of factor VIII plasmid (day 4) followed by a second Fc.Mut24 dose (day 7). Peripheral blood was collected weekly. Flow cytometry was used to characterize the peripheral blood cell populations, while ELISA and Bethesda assays were used to assess the inhibitor concentrations and the functional titers in plasma. The activated partial thromboplastin time assay was used to assess the functional activities of factor VIII in blood. The mice receiving Fc.Mut24 showed a dramatic and transient increase in the population of activated Tregs after Fc.Mut24 injection. Factor VIII gene therapy via hydrodynamic injection resulted in high anti-factor VIII inhibitor concentrations in control PBS-injected mice, whereas the mice treated with Fc.Mut24 produced no inhibitors. Most significantly, there were no inhibitors generated after a second hydrodynamic injection of factor VIII plasmid administered at 19 weeks after the first injection in Fc.Mut24-treated mice. The mice receiving Fc.Mut24 maintained high levels of factor VIII activity throughout the experiment, while the control mice had the factor VIII activity dropped to undetectable levels a few weeks after the first factor VIII plasmid injection. Our data show that human therapies analogous to Fc.Mut24 could potentially provide a method to prevent inhibitor formation and induce long-term immune tolerance to factor VIII in hemophilia patients.
Assessment of Liver Function for Evaluation of Long-Term Outcomes of Intrahepatic Cholangiocarcinoma: A Multi-Institutional Analysis of 620 Patients

Background: Liver function is a routine laboratory test prior to curative liver resection. It remains unclear whether the albumin–bilirubin (ALBI) grade and albumin-to-alkaline phosphatase ratio (AAPR) can predict long-term outcomes of surgically treated patients with intrahepatic cholangiocarcinoma (ICC). Methods: This study investigated the correlation between ALBI grade and AAPR with overall survival (OS) after liver resection and then compared their accuracy to the Child–Pugh score. Harrell's concordance index (C-index) and Akaike information criterion (AIC) were used to compare accuracy of models. Results: A total of 620 ICC patients were included, 477 in derivation cohort and 143 for validation. 0.348 was identified as the cutoff value for AAPR after calculating the Youden index. In the derivation cohort, elevated ALBI grade was associated with worse prognosis [hazard ratio (HR): 1.751, 95% confidence interval (CI): 1.329 to 2.306], and a decreased AAPR value was correlated with shorter OS (HR: 1.969, 95% CI: 1.552 to 2.497). Multivariate analysis suggested that the ALBI grade, AAPR, CA19-9, tumor number, and microvascular invasion were independent prognostic predictors for OS. ALBI grade and AAPR showed more accuracy in evaluating OS for surgically treated ICC patients than the Child–Pugh score (C-index: 0.559, 0.600 vs. 0.528; AIC: 3023.84, 3007.73 vs. 3034.66). Our findings were validated in an independent cohort from another clinical center. Conclusions: Importantly, the ALBI grade and AAPR showed greater discriminatory power than the Child–Pugh score in assessing long-term outcomes following hepatectomy for ICC. The AAPR was more accurate than the ALBI grade. It was beneficial to consider the ALBI grade and AAPR as useful surrogate markers to identify patients at risk of poor postoperative outcomes.
Spatial Contrast Sensitivity to Polarization and Luminance in Octopus

While color vision is achieved by comparison of signals of photoreceptors tuned to different parts of light spectra, polarization vision is achieved by comparison of signals of photoreceptors tuned to different orientations of the electric field component of visible light. Therefore, it has been suggested that polarization vision is similar to color vision. In most animals that have color vision, the shape of luminance contrast sensitivity curve differs from the shape of chromatic contrast sensitivity curve. While luminance contrast sensitivity typically decreases at low spatial frequency due to lateral inhibition, chromatic contrast sensitivity generally remains high at low spatial frequency. To find out if the processing of polarization signals is similar to the processing of chromatic signals, we measured the polarization and luminance contrast sensitivity dependence in a color-blind animal with well-developed polarization vision, Octopus tetricus. We demonstrate that, in Octopus tetricus, both luminance and polarization contrast sensitivity decrease at low spatial frequency and peak at the same spatial frequency (0.3 cpd). These results suggest that, in octopus, polarization and luminance signals are processed via similar pathways.
Nitrogen Substrate Utilization in Three Rhizosphere Bacterial Strains Investigated Using Proteomics

Nitrogen metabolism in the rhizosphere microbiome plays an important role in mediating plant nutrition, particularly under low inputs of mineral fertilizers. However, there is relatively little mechanistic information about which genes and metabolic pathways are induced by rhizosphere bacterial strains to utilize diverse nitrogen substrates. Here we investigate nitrogen substrate utilization in three taxonomically diverse bacterial strains previously isolated from Arabidopsis roots. The three strains represent taxa that are consistently detected as core members of the plant microbiome: Pseudomonas, Streptomyces, and Rhizobium. We use phenotype microarrays to determine the nitrogen substrate preferences of these strains, and compare the experimental results vs. computational simulations of genome-scale metabolic network models obtained with EnsembleFBA. Results show that all three strains exhibit generalistic nitrogen substrate preferences, with substrate utilization being well predicted by EnsembleFBA. Using label-free quantitative proteomics, we document hundreds of proteins in each strain that exhibit differential abundance values following cultivation on five different nitrogen sources: ammonium, glutamate, lysine, serine, and urea. The proteomic response to these nitrogen sources was strongly strain-dependent, with lysine nutrition eliciting widespread protein-level changes in Pseudomonas sp. Root9, whereas Rhizobium sp. Root491 showed relatively stable proteome composition across different nitrogen sources. Our results give new protein-level information about the specific transporters and enzymes induced by diverse rhizosphere bacterial strains to utilize organic nitrogen substrates.
Clinical Characteristics and Treatment Outcomes of 65 Patients With BRAF-Mutated Non-small Cell Lung Cancer

BRAF mutation is an oncogenic driver gene in non-small cell lung cancer (NSCLC) with low frequency. The data of patients with NSCLC harboring BRAF mutations is rare. We conducted a retrospective multicenter study in Chinese patients with NSCLC harboring BRAF mutations between Jan 2017 and Jul 2019. A total of 65 patients treated in 22 centers were included, 54 harbored BRAF-V600E mutation and 11 had non-V600E mutations, including K601E, G469S, G469V, G469A, G596R, G466R, and T599dup. Of 18 patients with early-stage disease at diagnosis and underwent a resection, the median disease-free survival (DFS) was 43.2, 18.7, and 10.1 months of stage I, II, and IIIA patients, respectively. In 46 patients with advanced-stage disease at data cutoff, disease control rate (DCR), and progression-free survival (PFS) of first-line anti-BRAF targeted therapy was superior than chemotherapy in patients harboring BRAF-V600E mutation (DCR, 100.0 vs. 70.0%, P = 0.027; median PFS, 9.8 vs. 5.4 months, P = 0.149). Of 30 V600E-mutated patients who received anti-BRAF therapy during the course of disease, median PFS of vemurafenib, dabrafenib, and dabrafenib plus trametinib was 7.8, 5.8, and 6.0 months, respectively (P = 0.970). Median PFS were similar between V600E and non-V600E patients (5.4 vs. 5.4 months, P = 0.825) to first-line chemotherapy. Nine patients were treated with checkpoint inhibitors, with median PFS of 3.0 months. Our data demonstrated the clinical benefit of anti-BRAF targeted therapy in Chinese NSCLC patients harboring BRAF-V600E mutation. The value of immunotherapy and treatment selection among non-V600E population needs further study.
Bruno Leoni’s Concept of Law and Representation in The Cyber Age: A Cybernetic Model

Abstract The purpose of this article is to contextualize Bruno Leoni’s political theory within the Digital Information Society, a new dimension of public participation in the political arena and a sign of the democratic transition through new forms of involvement by public opinion. In particular, the evolution of the Information Society will be briefly examined starting from the studies of Fritz Machlup, considered its progenitor, to pass to the examination of the Leonian concept of law and politics in the technological society, with reference to Norbert Wiener and Karl Deutsch’s cybernetic theory. This paper will attempt to describe the evolutive process of political participation in democratic society by reinterpreting the thought of Bruno Leoni concerning Democracy, the State and the homo telematicus in the digital social order.
On Solutions of Fractional order Telegraph Partial Differential Equation by Crank-Nicholson Finite Difference Method

Abstract The exact solution is calculated for fractional telegraph partial differential equation depend on initial boundary value problem. Stability estimates are obtained for this equation. Crank-Nicholson difference schemes are constructed for this problem. The stability of difference schemes for this problem is presented. This technique has been applied to deal with fractional telegraph differential equation defined by Caputo fractional derivative for fractional orders α = 1.1, 1.5, 1.9. Numerical results confirm the accuracy and effectiveness of the technique.
Effect of rhizobacteria strains on the induction of resistance in barley genotypes against Cochliobolus sativus

Summary Enhancement of the resistance level in plants by rhizobacteria has been proven in several pathosystems. This study investigated the ability of four rhizobacteria strains (Pseudomonas putida BTP1 and Bacillus subtilis Bs2500, Bs2504 and Bs2508) to promote the growth in three barley genotypes and protect them against Cochliobolus sativus. Our results demonstrated that all tested rhizobacteria strains had a protective effect on barley genotypes Arabi Abiad, Banteng and WI2291. However, P. putida BTP1 and B. subtilis Bs2508 strains were the most effective as they reduced disease incidence by 53 and 38% (mean effect), respectively. On the other hand, there were significant differences among the rhizobacteria-treated genotypes on plant growth parameters, such as wet weight, dry weight, plant height and number of leaves. Pseudomonas putida BTP1 strain was the most effective as it significantly increased plant growth by 15-32%. In addition, the susceptible genotypes Arabi Abiad and WI2291 were the most responsive to rhizobacteria. This means that these genotypes have a high potential for increase of their resistance against the pathogen and enhancement of plant growth after the application of rhizobacteria. Consequently, barley seed treatment with the tested rhizobacteria could be considered as an effective biocontrol method against C. sativus.
New strategies for the control of infectious and parasitic diseases in blood donors: the impact of pathogen inactivation methods

Abstract Around 70 infectious agents are possible threats for blood safety. The risk for blood recipients is increasing because of new emergent agents like West Nile, Zika and Chikungunya viruses, or parasites such as Plasmodium and Trypanosoma cruzi in non-endemic regions, for instance. Screening programmes of the donors are more and more implemented in several Countries, but these cannot prevent completely infections, especially when they are caused by new agents. Pathogen inactivation (PI) methods might overcome the limits of the screening and different technologies have been set up in the last years. This review aims to describe the most widely used methods focusing on their efficacy as well as on the preservation integrity of blood components.
Influence of Life Style on Safety and Work Efficiency

Abstract Occupational health and safety nowadays is beginning to be seen in a multi-interdisciplinary way. Man's lifestyle also contributes to safety at work and work efficiency. The employee performs tasks at a specific place and time, however, this work is also affected by elements of private life. This paper deals with the impact of private life and lifestyle on human professional work in the areas of work safety and its efficiency. The research has been conducted on the basis of the opinions of employees.
Domain-Oriented Masked Instruction Set Architecture for RISC-V

—An important selling point for the RISC-V instruction set is the separation between ISA and the implementation of the ISA, leading to ﬂexibility in the design. We argue that for secure implementations, this ﬂexibility is often a vulnerability. With a hardware attacker, the side-effects of instruction execution cannot be ignored. As a result, a strict separation between the ISA interface and implementation is undesirable. We suggest that secure ISA may require additional implementation constraints. As an example, we describe an instruction-set for the development of power side-channel resistant software
Conservation of the avian biodiversity in paddy (Oryza sativa) crop agroecosystem

The quantity of shattered rice (Oryza sativa L.) grains was estimated in 12 freshly harvested rice fields during 1997 in Kheda district, Gujarat. Average quantity of shattered grains was 106.26 kg/ha ranging from 50.06 kg/ha to 198.19 kg/ha. Total 98 % grains was depleted within 4 week period atter harvesting; 60 % within first week and remaining 38 % within next 3 weeks. Total 67 bird species consumed crop residues, which became exposed after harvesting, of which the ruff Phylomacus pugnax, eastern skylark Alauda gulgula, and yellow wagtail Motacilla flava were predominant. The grains and fauna exposed due to harvesting activity over 2 months period had very high value for conservation of the avian biodiversity.
A Hard Lesson: Assessing the HTTPS Deployment of Italian University Websites

In this paper we carry out a systematic analysis of the state of the HTTPS deployment of the most popular Italian university websites. Our analysis focuses on three diﬀerent key aspects: HTTPS adoption and activation, HTTPS certiﬁcates, and cryptographic TLS implementations. Our investigation shows that the current state of the HTTPS deployment is unsatisfactory, yet it is possible to signiﬁcantly improve the level of security by working exclusively at the web application layer. We hope this observation will encourage site operators to take actions to improve the current state of protection.
Computing Blindfolded on Data Homomorphically Encrypted under Multiple Keys: An Extended Survey

New cryptographic techniques such as homomorphic encryption (HE) allow computations to be outsourced to and evaluated blindfolded in a resourceful cloud. These computations often require private data owned by multiple participants, engaging in joint evaluation of some functions. For example, Genome-Wide Association Study (GWAS) is becoming feasible because of recent proliferation of genome sequencing technology. Due to the sensitivity of genomic data, these data should be encrypted using different keys. However, supporting computation on ciphertexts encrypted under multiple keys is a non-trivial task. In this paper, we present a comprehensive survey on different state-of-the-art cryptographic techniques and schemes that are commonly used. We review techniques and schemes including Attribute-Based Encryption (ABE), Proxy Re-Encryption (PRE), Threshold Homomorphic Encryption (ThHE), and Multi-Key Homomorphic Encryption (MKHE). We analyze them based on different system and security models, and examine their complexities. We share lessons learned and draw observations for designing better schemes with reduced overheads.
Comparative transcriptome analysis of the hippocampus from sleep-deprived and Alzheimer’s disease mice

Abstract We did a comparative analysis of the gene expression profiles of the hippocampus from sleep deprivation and Alzheimer’s disease (AD) mice. Differentially expressed genes (DEGs) were identified by comparing the transcriptome profiles of the hippocampus of sleep deprivation or AD mouse models to matched controls. The common DEGs between sleep deprivation and AD were identified by the overlapping analysis, followed by Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses. The results showed that a total of 16 common DEGs showed similar change patterns in both sleep deprivation mice and AD mice. Sgk1, Ly6a, Atp6v0e, Hspb8, Htra1, Pdk4, Pfkfb3, Golm1, and Plin3 were up-regulated in the two disorders, whereas, Marcksl1, Fgd1, Scarb1, Mvd, Klhl13, Elovl2, and Vps29 were down-regulated. Acetyl-CoA metabolic process and lipid biosynthetic process were significantly enriched by those DEGs. The highly expressed DEGs and the two GO terms were associated with neuropathological changes according to the previous studies. As expected, sleep deprivation may contribute the AD development through these common DEGs.
Solid Culturing of Bacillus amyloliquefaciens for α-Amylase Production

Summary Fourteen different agroresidues were screened for alpha amylase production using Bacillus amyloliquefaciens ATCC 23842. Among them, wheat bran (WB) and groundnut oil cake (GOC) in mass ratio of 1:1 was proved as the best substrate source. Supplementation with 0.01 M KH2PO4 and 1 % soluble starch enhanced the enzyme yield considerably. Maximum enzyme recovery from the solid mass was obtained when extracted with 0.1 M acetate buffer, pH=5.0. Maximum enzyme titer expressed as units per mass of dry substrate obtained was 62 470 U/g after 72 hours of fermentation at 37 °C by using the above solid substrate mixture (5 g) with the initial moisture of 85 % and inoculated with Bacillus amyloliquefaciens of 2·10 9 CFU/mL.
Cardiac Magnetic Resonance Myocardial Feature Tracking for Optimized Risk Assessment After Acute Myocardial Infarction in Patients With Type 2 Diabetes

Type 2 diabetes predicts outcome following acute myocardial infarction (AMI). Since underlying mechanics are incompletely understood, we investigated left ventricular (LV) and left atrial (LA) pathophysiological changes and their prognostic implications using cardiovascular magnetic resonance (CMR). Consecutive patients (N = 1,147; n = 265 with diabetes, n = 882 without diabetes) underwent CMR 3 days after AMI. Analyses included LV ejection fraction (LVEF); global longitudinal strain (GLS) and circumferential and radial strains; LA reservoir, conduit, and booster pump strains; and infarct size, edema, and microvascular obstruction. Predefined end points were major adverse cardiovascular events (MACE) within 12 months. Patients with diabetes had impaired LA reservoir (19.8% vs. 21.2%, P < 0.01) and conduit (7.6% vs. 9.0%, P < 0.01) strains but not ventricular function or myocardial damage. They were at higher risk of MACE than patients without diabetes (10.2% vs. 5.8%, P < 0.01), with most MACE occurring in patients with LVEF ≥35%. While LVEF (P = 0.045) and atrial reservoir strain (P = 0.024) were independent predictors of MACE in patients without diabetes, GLS was in patients with diabetes (P = 0.010). Considering patients with diabetes and LVEF ≥35% (n = 237), GLS and LA reservoir strain below median were significantly associated with MACE. In conclusion, in patients with diabetes, LA and LV longitudinal strain permit optimized risk assessment early after reperfused AMI with incremental prognostic value over and above that of LVEF.