Miracle-dz/UniFAR-FTUs huggingface dataset:
"Fight-or-Flight": Leveraging Instinctive Human Defensive Behaviors for Safe Human-Robot Interaction

Maintaining the safety of humans is of paramount concern in the field of human-robot interaction. We employed a Research through Design (RtD) approach to explore better HRI safety mechanisms. We conducted a preliminary design study where we presented a group of designers various scenarios of different robotic platforms acting unsafely. Our findings indicate that participants mapped human responses to unsafe robotic interfaces, to natural human defensive behaviors in response to varying levels of threat stimuli. Based on preliminary findings, we suggest leveraging the instinctive human ability to react to dangerous situations as a fail-safe mechanism to the robot»s own built-in safety methods.
Biofouling detection based on image processing technique

Traditional methods for performing biofouling detection are based upon probing object surfaces for subsequent laboratory research. Such methods result in large effort, they are expensive, and require expert consultations. Knowledge of the type of biological contaminants is necessary to protect objects from their harmful impact. In this paper we propose a method for determination of types of biological contaminants existing on the objects surface. The proposed method uses a collection of object's images as input. The collection contains images obtained in the visible and near infrared spectral bands. During pre-processing the series, all images are converted to a selected shooting point, and the background is removed. Feature vector is built from combinations of formal vegetation indices. To recognize the type of biological contaminants, we used a pre-trained classifier based on SVM method with RBF kernel.
Replication of the Association of a MET Variant with Autism in a Chinese Han Population

Background Autism is a common, severe and highly heritable neurodevelopmental disorder in children, affecting up to 100 children per 10,000. The MET gene has been regarded as a promising candidate gene for this disorder because it is located within a replicated linkage interval, is involved in pathways affecting the development of the cerebral cortex and cerebellum in ways relevant to autism patients, and has shown significant association signals in previous studies. Principal Findings Here, we present new ASD patient and control samples from Heilongjiang, China and use them in a case-control and family-based replication study of two MET variants. One SNP, rs38845, was successfully replicated in a case-control association study, but failed to replicate in a family-based study, possibly due to small sample size. The other SNP, rs1858830, failed to replicate in both case-control and family-based studies. Conclusions This is the first attempt to replicate associations in Chinese autism samples, and our result provides evidence that MET variants may be relevant to autism susceptibility in the Chinese Han population.
Depressed hydraulic redistribution of roots more by stem refilling than by nocturnal transpiration for Populus euphratica Oliv. in situ measurement

Abstract During the night, plant water loss can occur either through the roots, as hydraulic redistribution (HR), or through the leaves via the stoma, as nocturnal transpiration (E n), which was methodologically difficult to separate from stem refilling (R e). While HR and E n have been reported across a range of species, ecosystem, and climate zone, there is little understanding on the interactions between E n and/or R e and HR. As water movement at night occurs via gradients of water potential, it is expected that during periods of high atmospheric vapor pressure deficit (VPD), water loss via E n will override water loss via HR. To test this hypothesis, sap flow in stems and roots of Populus euphratica Oliv. trees, growing in a riparian zone in a hyperarid climate, was measured once in a year. Nocturnal stem sap flow was separated into E n and R e using the “forecasted refilling” method. Substantial nocturnal sap flow (38% of 24‐hr flux on average) was observed and positively correlated with VPD; however, the strength of the correlation was lower (R 2 = .55) than diurnal sap flow (E d) (R 2 = .72), suggesting that nocturnal stem sap flow was attributed to both water loss through the canopy and replenishment of water in stem tissues. Partitioning of nocturnal sap flow shows that R e constituted approximately 80%, and E n ~20%, of nocturnal sap flow. The amount of root sap flow attributed to redistribution was negatively related to E d (R 2 = .69) and the amount of acropetally sap flow in stems, R e (R 2 = .41) and E n (R 2 = .14). It was suggested that the magnitude of HR is more strongly depressed by R e that was recharge to the water loss via E d than by E n. It was consistent with whole‐tree water balance theory, that the nighttime upward sap flow to xylem, stem refilling and transpiration, may depress hydraulic redistribution of roots.
Fast Spatial Gaussian Process Maximum Likelihood Estimation via Skeletonization Factorizations

Maximum likelihood estimation for parameter fitting given observations from a Gaussian process in space is a computationally demanding task that restricts the use of such methods to moderately sized datasets. We present a framework for unstructured observations in two spatial dimensions that allows for evaluation of the log-likelihood and its gradient (i.e., the score equations) in $\tilde O(n^{3/2})$ time under certain assumptions, where $n$ is the number of observations. Our method relies on the skeletonization procedure described by Martinsson and Rokhlin [J. Comput. Phys., 205 (2005), pp. 1--23] in the form of the recursive skeletonization factorization of Ho and Ying [Comm. Pure Appl. Math., 69 (2015), pp. 1415--1451]. Combining this with an adaptation of the matrix peeling algorithm of Lin, Lu, and Ying [J. Comput. Phys., 230 (2011), pp, 4071--4087] for constructing $\mathcal{H}$-matrix representations of black-box operators, we obtain a framework that can be used in the context of any first-order o.
Prognostic factors of non-functioning pancreatic neuroendocrine tumor revisited: The value of WHO 2010 classification

Backgrounds/Aims Various factors have been reported as prognostic factors of non-functional pancreatic neuroendocrine tumors (NF-pNETs). There remains some controversy as to the factors which might actually serve to successfully prognosticate future manifestation and diagnosis of NF-pNETs. As well, consensus regarding management strategy has never been achieved. The aim of this study is to further investigate potential prognostic factors using a large single-center cohort to help determine the management strategy of NF-pNETs. Methods During the time period 1995 through 2013, 166 patients with NF-pNETs who underwent surgery in Samsung Medical Center were entered in a prospective database, and those factors thought to represent predictors of prognosis were tested in uni- and multivariate models. Results The median follow-up time was 46.5 months; there was a maximum follow-up period of 217 months. The five-year overall survival and disease-free survival rates were 88.5% and 77.0%, respectively. The 2010 WHO classification was found to be the only prognostic factor which affects overall survival and disease-free survival in multivariate analysis. Also, pathologic tumor size and preoperative image tumor size correlated strongly with the WHO grades (p<0.001, and p<0.001). Conclusions Our study demonstrates that 2010 WHO classification represents a valuable prognostic factor of NF-pNETs and tumor size on preoperative image correlated with WHO grade. In view of the foregoing, the preoperative image size is thought to represent a reasonable reference with regard to determination and development of treatment strategy of NF-pNETs.
Crystal Structure of Marburg Virus VP40 Reveals a Broad, Basic Patch for Matrix Assembly and a Requirement of the N-Terminal Domain for Immunosuppression

ABSTRACT Marburg virus (MARV), a member of the filovirus family, causes severe hemorrhagic fever with up to 90% lethality. MARV matrix protein VP40 is essential for assembly and release of newly copied viruses and also suppresses immune signaling in the infected cell. Here we report the crystal structure of MARV VP40. We found that MARV VP40 forms a dimer in solution, mediated by N-terminal domains, and that formation of this dimer is essential for budding of virus-like particles. We also found the N-terminal domain to be necessary and sufficient for immune antagonism. The C-terminal domains of MARV VP40 are dispensable for immunosuppression but are required for virus assembly. The C-terminal domains are only 16% identical to those of Ebola virus, differ in structure from those of Ebola virus, and form a distinct broad and flat cationic surface that likely interacts with the cell membrane during virus assembly. IMPORTANCE Marburg virus, a cousin of Ebola virus, causes severe hemorrhagic fever, with up to 90% lethality seen in recent outbreaks. Molecular structures and visual images of the proteins of Marburg virus are essential for the development of antiviral drugs. One key protein in the Marburg virus life cycle is VP40, which both assembles the virus and suppresses the immune system. Here we provide the molecular structure of Marburg virus VP40, illustrate differences from VP40 of Ebola virus, and reveal surfaces by which Marburg VP40 assembles progeny and suppresses immune function.
Faster Kernel Ridge Regression Using Sketching and Preconditioning

Kernel ridge regression is a simple yet powerful technique for nonparametric regression whose computation amounts to solving a linear system. This system is usually dense and highly ill-conditioned. In addition, the dimensions of the matrix are the same as the number of data points, so direct methods are unrealistic for large-scale datasets. In this paper, we propose a preconditioning technique for accelerating the solution of the aforementioned linear system. The preconditioner is based on random feature maps, such as random Fourier features, which have recently emerged as a powerful technique for speeding up and scaling the training of kernel-based methods, such as kernel ridge regression, by resorting to approximations. However, random feature maps only provide crude approximations to the kernel function, so delivering state-of-the-art results by directly solving the approximated system requires the number of random features to be very large. We show that random feature maps can be much more effective .
Learning to Deblur

We describe a learning-based approach to blind image deconvolution. It uses a deep layered architecture, parts of which are borrowed from recent work on neural network learning, and parts of which incorporate computations that are specific to image deconvolution. The system is trained end-to-end on a set of artificially generated training examples, enabling competitive performance in blind deconvolution, both with respect to quality and runtime.
Plasma generators for thermal plasma processes

Abstract An overview is given of Plasma Generators developed with the focus on application in thermal spraying, some of which might even find use in other thermal plasma processes. The construction and operation principle of conventional plasma torches as well as of plasma torches with special features are presented. The particular properties and application potential of the innovative plasma generator types “Triplex”, “Delta” and “Large”, each operating with new physical principles, are discussed.
Bovine Tuberculosis Prevalence Survey on Cattle in the Rural Livestock System of Torodi (Niger)

Background Bovine tuberculosis (BTB) is a widespread zoonosis in developing countries but has received little attention in sub-Saharan Africa, especially in Niger. Recent investigations confirmed the high incidence of the disease in cattle slaughtered in an abattoir in Niamey. The fact that most of the animals in which M. bovis has been identified were from the rural area of Torodi implied the existence of a probable source of BTB in this region. This study aimed to determine the prevalence of BTB infection in cattle and to identify risk factors for infection in human and cattle populations in Torodi. Methods and Principal Findings A survey was carried out at the level of households keeping livestock (n = 51). The questionnaire was related to the potential risk factors and the presence of clinical signs of TB both in animals and humans. Comparative Intradermal Tuberculin Test was conducted to determine the TB status in cattle (n = 393). The overall apparent individual animal prevalence of tuberculin reactors was 3.6% (CI: 95%, 1.9–5.9), whereas the individual true prevalence was estimated at 0.8% (CI: 95%, 0.0–5.0). Using a multivariate logistic regression analysis and a classification tree analysis, the only household level risk factor that significantly influenced the presence of BTB in cattle was the presence of animals coughing in the herd (OR = 4.7, 95% CI: 1.12–19.71, p-value = 0.034). The lack of the practice of quarantine was borderline significant (OR = 4.2, 95% CI: 0.96–18.40, p-value = 0.056). Conclusion/Significance The study confirmed that BTB is endemic in cattle in Torodi and the risk of the transmission of the disease to humans is potentially high. For the control of the disease in livestock, slaughtering of infected animals and the compensation of the owners is needed. Collaboration between the veterinary and the medical sectors, in the diagnosis, monitoring, prevention and control of BTB is strongly encouraged.
Glutathione and Adaptive Immune Responses against Mycobacterium tuberculosis Infection in Healthy and HIV Infected Individuals

Glutathione (GSH), a tripeptide antioxidant, is essential for cellular homeostasis and plays a vital role in diverse cellular functions. Individuals who are infected with Human immuno deficiency virus (HIV) are known to be susceptible to Mycobacterium tuberculosis (M. tb) infection. We report that by enhancing GSH levels, T-cells are able to inhibit the growth of M. tb inside macrophages. In addition, those GSH-replenished T cell cultures produced increased levels of Interleukin-2 (IL-2), Interleukin-12 (IL-12), and Interferon-gamma (IFN-γ), cytokines, which are known to be crucial for the control of intracellular pathogens. Our study reveals that T lymphocytes that are derived from HIV infected individuals are deficient in GSH, and that this deficiency correlates with decreased levels of Th1 cytokines and enhanced growth of M. tb inside human macrophages.
Dual pitch plasmonic devices for polarization enhanced colour based sensing

Plasmonic devices provide a unique sensitivity to changes in the permittivity of the immediate, near-surface environment. In this work we explore the use of dual pitch plasmonic devices combined with microfluidics for polarization enhanced colour sensing of a chemicals’ refractive index. We demonstrate that the use of cross-shaped apertures can produce polarization tunable color based sensing in the optical regime and show that the spectral variations as a function of the incident polarization can be decomposed into contributions from the two orthogonal modes that characterize the dual pitch plasmonic device. Finally we demonstrate that the use of the full colour spectrum in the visible range in combination with polarization control enables sensing ‘by-eye’ of refractive index changes below 1 × 10-3 RIU.
Searching for assay controls for the Fpg- and hOGG1-modified comet assay

The formamidopyrimidine DNA glycosylase (Fpg) and human 8-oxoguanine DNA glycosylase (hOGG1)-modified comet assays have been widely used in human biomonitoring studies. The purpose of this article is to assess differences in reported levels of Fpg- and hOGG1-sensitive sites in leukocytes and suggest suitable assay controls for the measurement of oxidatively damaged DNA. An assessment of the literature showed a large variation in the reported levels of Fpg-sensitive sites (range 0.05-1.31 lesions/106 bp). The levels of Fpg-sensitive sites are lower in studies where Fpg has been obtained from commercial suppliers or unknown sources as compared to Fpg from one particular non-commercial source (χ2 = 7.14, P = 0.028). The levels of hOGG1-sensitive sites are lower (range: 0.04-0.18 lesions/106 bp in leukocytes) compared to the Fpg-sensitive sites. Surprisingly, few publications have reported the use of oxidising agents as assay controls, with the exception of hydrogen peroxide. This may be due to a lack of consensus about suitable controls for the Fpg- and hOGG1-modified comet assay. A major challenge is to find an oxidising agent that only oxidises nucleobases and does not generate DNA strand breaks because this reduces the dynamic range of Fpg- and hOGG1-sensitive sites in the comet assay. Based on a literature search we selected the photosensitiser Ro19-8022 plus light, KBrO3, 4-nitroquinoline-1-oxide, Na2Cr2O7 and ferric nitrilotriacetate as possible assay controls. A subsequent assessment of these compounds for generating cryopreserved assay controls in mononuclear blood cells showed that Ro19-8022 plus light, KBrO3 and 4-nitroquinoline-1-oxide provided suitable assay controls. We recommend these compounds as comet assay controls for oxidatively damaged DNA.
Synchronization of identical neural networks and other systems with an adaptive coupling strength

In this paper, a new scheme to synchronize linearly or nonlinearly coupled identical circuit systems, which include neural networks and other systems, with an adaptive coupling strength is proposed. Unlike other adaptive schemes that synchronize coupled circuit systems to a specified trajectory (or an equilibrium point) of the uncoupled node by adding negative feedbacks adaptively, here the new adaptive scheme for the coupling strength is used to synchronize coupled systems without knowing the final synchronization trajectory. Moreover, the adaptive scheme is applicable when the coupling matrix is unknown or time‐varying. The validity of the new adaptive scheme is also proved rigorously. Finally, several numerical simulations to synchronize coupled neural networks, Chua's circuits and Lorenz systems, are also given to show the effectiveness of the theory. Copyright © 2009 John Wiley & Sons, Ltd.
Epstein-Barr Virus-Induced Gene 3 (EBI3): A Novel Diagnosis Marker in Burkitt Lymphoma and Diffuse Large B-Cell Lymphoma

The distinction between Burkitt lymphoma (BL) and diffuse large B-cell lymphoma (DLBCL), two types of mature aggressive B-cell lymphomas that require distinct treatments, can be difficult because of forms showing features intermediate between DLBCL and BL (here called BL/DLBCL). They can be discriminated by the presence of c-myc translocations characteristic of BL. However, these are not exclusive of BL and when present in DLBCL are associated with lower survival. In this study, we show that Epstein-Barr virus-induced gene 3 (EBI3) is differentially expressed among BL and DLBCL. Analysis of gene expression data from 502 cases of aggressive mature B-cell lymphomas available on Gene Expression Omnibus and immunohistochemical analysis of 184 cases of BL, BL/DLBCL or DLBCL, showed that EBI3 was not expressed in EBV-positive or -negative BL cases, whereas it was expressed by over 30% of tumoral cells in nearly 80% of DLBCL cases, independently of their subtypes. In addition, we show that c-myc overexpression represses EBI3 expression, and that DLBCL or BL/DLBCL cases with c-myc translocations have lower expression of EBI3. Thus, EBI3 immunohistochemistry could be useful to discriminate BL from DLBCL, and to identify cases of BL/DLBCL or DLBCL with potential c-myc translocations.
Emulsified Nanoparticles Containing Inactivated Influenza Virus and CpG Oligodeoxynucleotides Critically Influences the Host Immune Responses in Mice

Background Antigen sparing and cross-protective immunity are regarded as crucial in pandemic influenza vaccine development. Both targets can be achieved by adjuvantation strategy to elicit a robust and broadened immune response. We assessed the immunogenicity of an inactivated H5N1 whole-virion vaccine (A/Vietnam/1194/2004 NIBRG-14, clade 1) formulated with emulsified nanoparticles and investigated whether it can induce cross-clade protecting immunity. Methodology/Principal Findings After formulation with PELC, a proprietary water-in-oil-in-water nanoemulsion comprising of bioresorbable polymer/Span®85/squalene, inactivated virus was intramuscularly administered to mice in either one-dose or two-dose schedule. We found that the antigen-specific serum antibody responses elicited after two doses of non-adjuvanted vaccine were lower than those observed after a single dose of adjuvanted vaccine, PELC and the conventional alum adjuvant as well. Moreover, 5 µg HA of PELC-formulated inactivated virus were capable of inducing higher antibodies than those obtained from alum-adjuvanted vaccine. In single-dose study, we found that encapsulating inactivated virus into emulsified PELC nanoparticles could induce better antibody responses than those formulated with PELC-adsorbed vaccine. However, the potency was rather reduced when the inactivated virus and CpG (an immunostimulatory oligodeoxynucleotide containing unmethylated cytosine-guanosine motifs) were co-encapsulated within the emulsion. Finally, the mice who received PELC/CpG(adsorption)-vaccine could easily and quickly reach 100% of seroprotection against a homologous virus strain and effective cross-protection against a heterologous virus strain (A/Whooper swan/Mongolia/244/2005, clade 2.2). Conclusions/Significance Encapsulating inactivated H5N1 influenza virus and CpG into emulsified nanoparticles critically influences the humoral responses against pandemic influenza. These results demonstrated that the use of PELC could be as antigen-sparing in preparation for a potential shortage of prophylactic vaccines against local infectious diseases, in particular pandemic influenza. Moreover, the cross-clade neutralizing antibody responses data verify the potential of such adjuvanted H5N1 candidate vaccine as an effective tool in pre-pandemic preparedness.
Over-the-Air Updates for Robotic Swarms

Along with the growing number of robotic devices introduced by automation and the Internet of Things has come the growth of interest in methods and tools for deploying code updates to active sensor arrays and swarms of robots. This article presents a toolset that can perform an over-the-air code update of the robots in a swarm while the swarm is active, without interrupting the swarm’s mission. Each update is generated as a patch of the currently deployed code. A consensus mechanism borrowed from swarm intelligence ensures that, at any given time, all robots in the swarm run the same code version. Simulations were conducted with thousands of units to study the scalability and bandwidth consumption of the update process. Real deployment experiments were then performed on a small swarm of commercial quadcopters. This article is part of a theme issue on release engineering.
Mutant IDH1 regulates the tumor-associated immune system in gliomas

Amankulor et al. created a syngeneic pair mouse model for mutant IDH1 (muIDH1) and wild-type IDH1 (wtIDH1) gliomas and demonstrated that IDH1 mutations caused down-regulation of leukocyte chemotaxis, resulting in repression of the tumor-associated immune system.