Miracle-dz/UniFAR-FTUs huggingface dataset:
Adversarial Robustness Through Local Lipschitzness

A standard method for improving the robustness of neural networks is adversarial training, where the network is trained on adversarial examples that are close to the training inputs. This produces classifiers that are robust, but it often decreases clean accuracy. Prior work even posits that the tradeoff between robustness and accuracy may be inevitable. We investigate this tradeoff in more depth through the lens of local Lipschitzness. In many image datasets, the classes are separated in the sense that images with different labels are not extremely close in $\ell_\infty$ distance. Using this separation as a starting point, we argue that it is possible to achieve both accuracy and robustness by encouraging the classifier to be locally smooth around the data. More precisely, we consider classifiers that are obtained by rounding locally Lipschitz functions. Theoretically, we show that such classifiers exist for any dataset such that there is a positive distance between the support of different classes. Empirically, we compare the local Lipschitzness of classifiers trained by several methods. Our results show that having a small Lipschitz constant correlates with achieving high clean and robust accuracy, and therefore, the smoothness of the classifier is an important property to consider in the context of adversarial examples. Code available at this https URL .
Nested Reasoning About Autonomous Agents Using Probabilistic Programs

As autonomous agents become more ubiquitous, they will eventually have to reason about the plans of other agents, which is known as theory of mind reasoning. We develop a planning-as-inference framework in which agents perform nested simulation to reason about the behavior of other agents in an online manner. As a concrete application of this framework, we use probabilistic programs to model a high-uncertainty variant of pursuit-evasion games in which an agent must make inferences about the other agents' plans to craft counter-plans. Our probabilistic programs incorporate a variety of complex primitives such as field-of-view calculations and path planners, which enable us to model quasi-realistic scenarios in a computationally tractable manner. We perform extensive experimental evaluations which establish a variety of rational behaviors and quantify how allocating computation across levels of nesting affects the variance of our estimators.
Image Generation from Freehand Scene Sketches

We introduce the ﬁrst method for automatic image generation from scene-level freehand sketches. Our model allows for controllable image generation by specifying the synthesis goal via freehand sketches. The key contribution is an attribute vector bridged generative adversarial network called edgeGAN which supports high visual-quality image content generation without using freehand sketches as training data. We build a large-scale composite dataset called SketchyCOCO to comprehensively evaluate our so-lution. We validate our approach on the task of both object-level and scene-level image generation on SketchyCOCO. We demonstrate the method’s capacity to generate realistic complex scene-level images from a variety of freehand sketches by quantitative, qualitative results, and ablation studies.
Elucidating the 1H NMR Relaxation Mechanism in Polydisperse Polymers and Bitumen using Measurements, MD Simulations, and Models.

The mechanism behind the 1H NMR frequency dependence of T1 and the viscosity dependence of T2 for polydisperse polymers and bitumen remains elusive. We elucidate the matter through NMR relaxation measurements of polydisperse polymers over an extended range of frequencies (f0 = 0.01 ↔ 400 MHz) and viscosities (η = 385 ↔ 102,000 cP) using T1 and T2 in static fields, T1 field-cycling relaxometry, and T1ρ in the rotating frame. We account for the anomalous behavior of the log-mean relaxation times T1LM ∝ f0 and T2LM ∝ (η/T)-1/2 with a phenomenological model of 1H-1H dipole-dipole relaxation which includes a distribution in molecular correlation times and internal motions of the non-rigid polymer branches. We show that the model also accounts for the anomalous T1LM and T2LM in previously reported bitumen measurements. We find that molecular dynamics (MD) simulations of the T1 ∝ f0 dispersion and T2 of similar polymers simulated over a range of viscosities (η = 1 ↔ 1,000 cP) are in good agreement with measurements and the model. The T1 ∝ f0 dispersion at high viscosities agrees with previously reported MD simulations of heptane confined in a polymer matrix, which suggests a common NMR relaxation mechanism between viscous polydisperse fluids and fluids under confinement, without the need to invoke paramagnetism.
MULTIFRACTALITY OF PRODUCTS OF GEOMETRIC ORNSTEIN–UHLENBECK-TYPE PROCESSES

We investigate the properties of multifractal products of geometric Ornstein–Uhlenbeck (OU) processes driven by Lévy motion. The conditions on the mean, variance, and covariance functions of the resulting cumulative processes are interpreted in terms of the moment generating functions. We consider five cases of infinitely divisible distributions for the background driving Lévy processes, namely, the gamma and variance gamma distributions, the inverse Gaussian and normal inverse Gaussian distributions, and the z-distributions. We establish the corresponding scenarios for the limiting processes, including their Rényi functions and dependence structure.
Cyber-attack group analysis method based on association of cyber-attack information

Cyber-attacks emerge in a more intelligent way, and various security technologies are applied to respond to such attacks. Still, more and more people agree that individual response to each intelligent infringement attack has a fundamental limit. Accordingly, the cyber threat intelligence analysis technology is drawing attention in analyzing the attacker group, interpreting the attack trend, and obtaining decision making information by collecting a large quantity of cyber-attack information and performing relation analysis. In this study, we proposed relation analysis factors and developed a system for establishing cyber threat intelligence, based on malicious code as a key means of cyber-attacks. As a result of collecting more than 36 million kinds of infringement information and conducting relation analysis, various implications that cannot be obtained by simple searches were derived. We expect actionable intelligence to be established in the true sense of the word if relation analysis logic is developed later.
Influence of Early-Life Exposures on Food Sensitization and Food Allergy in an Inner-City Birth Cohort

EC McGowan, GR Bloomberg, PJ Gergen. J Allergy Clin Immunol. 2014;135(1);171–178 To use clinical, serological, and environmental exposure data to evaluate the prevalence of food allergy (FA) and the contribution of environmental exposures on sensitization and allergy in a population of inner-city children. The study enrolled 560 children from the Urban Environment and Childhood Asthma birth cohort (≥34 weeks’ gestation) with a parental history of allergic disease or asthma, cord blood sample, and food-specific immunoglobulin (Ig)E levels measured. Pregnant women were enrolled and their children followed from birth to age 5 years. Mothers …
Chemical evolution of galaxies: emerging dust and the different gas phases in a new multiphase code

Dust plays an important role in the evolution of a galaxy, as it is one of the main ingredients for efficient star formation. Dust grains are also a sink/source of metals when they are created/destroyed, and, therefore, a self-consistent treatment is key in order to correctly model chemical evolution. In this work, we discuss the implementation of dust physics in our current multiphase model, which also follows the evolution of atomic, ionized and molecular gas. Our goal is to model the conversion rates among the different phases of the interstellar medium, including the creation, growth and destruction of dust, based, as far as possible, on physical principles rather than on phenomenological recipes. We first present the updated set of differential equations and then discuss the results. We calibrate our model against observations of the Milky Way Galaxy and compare its predictions with extant data. Our results are broadly consistent with the observed data for intermediate and high metallicities, but the models tend to produce more dust than is observed in the low-metallicity regime.
Principles of dengue virus evolvability derived from genotype-fitness maps in human and mosquito cells

Dengue virus (DENV), an arbovirus infecting over 100 million annually, cycles between human and mosquito hosts1. Examining how DENV adapts to such different host environments could uncover principles of arbovirus transmission and emergence. Here we combine sequential passaging and ultra-deep sequencing to examine the sequence dynamics and fitness changes of DENV populations adapting to human and mosquito cells, identifying the contributions of beneficial and deleterious mutations in shaping the fitness landscape driving host-specific paths of viral adaptation. We find DENV phenotypic adaptation is best described by the collective fitness contributions of all the alleles present in the population. Accordingly, while increased fitness during adaptation to each host is driven by host-specific beneficial mutations, it is reduced by the consistently replenished genetic load of deleterious mutations. Of note, host-specific beneficial mutations are in discrete regions across the genome, revealing molecular mechanisms of adaptation. Some of these clusters comprise phenotypically redundant mutations that may provide evolutionary robustness to transmission bottlenecks. Our results also suggest DENV adaptation is facilitated through variation in intrinsically disordered protein regions while transmembrane and structured domains evolve under stronger biophysical constraints. Importantly, the adaptation strategies uncovered in our simple system mirror macro-evolutionary changes observed across DENV serotypes and Zika virus and may suggest general principles of evolvability in arbovirus evolution.
Multiple comparison correction methods for whole-body magnetic resonance imaging

Abstract. Purpose: Voxel-level hypothesis testing on images suffers from test multiplicity. Numerous correction methods exist, mainly applied and evaluated on neuroimaging and synthetic datasets. However, newly developed approaches like Imiomics, using different data and less common analysis types, also require multiplicity correction for more reliable inference. To handle the multiple comparisons in Imiomics, we aim to evaluate correction methods on whole-body MRI and correlation analyses, and to develop techniques specifically suited for the given analyses. Approach: We evaluate the most common familywise error rate (FWER) limiting procedures on whole-body correlation analyses via standard (synthetic no-activation) nominal error rate estimation as well as smaller prior-knowledge based stringency analysis. Their performance is compared to our anatomy-based method extensions. Results: Results show that nonparametric methods behave better for the given analyses. The proposed prior-knowledge based evaluation shows that the devised extensions including anatomical priors can achieve the same power while keeping the FWER closer to the desired rate. Conclusions: Permutation-based approaches perform adequately and can be used within Imiomics. They can be improved by including information on image structure. We expect such method extensions to become even more relevant with new applications and larger datasets.
Providing dental services where there are no roads: Lessons from the field

Background: The riverine islanders of Brahmaputra (Assam, India) are among the most economically backward population group of Assam. Recurring floods results in eclectic damage affecting their everyday lives. Medical Relief is limited due to vast water body, which pose a challenge in providing and accessing health services with limited or no provision for oral health services. Objectives: Planning and implementing a program for delivery of dental services on an already existing model of 'Boat Clinics' in Assam, India. Setting and Design: Isolated riverine islands of Brahmaputra River in North eastern State of Assam, India. Materials and Methods: A service model was designed to implement and provide dental services on an already existing model of 'Boat Clinics' in Assam. Dentals services were provided via two dental units installed (in March 2016) in two different boats on a trial basis. Situation analysis of the setting was done prior to implementation. Challenges encountered were overcome using alternative strategy. Results: Situation analysis revealed dental caries affecting about 59.8 percent of the islanders (DMFT=3). The number of beneficiaries almost doubled from 2016. More than 750 islanders have been treated in 2017 from one 'boat dental clinic'. Women seem to utilize oral health services more than men and extraction was preferred over restoration. The main challenge had been the unavailability of full time dentists, auxillary dental personnel and management of complex dental cases. Discussion: Boat Dental Clinic Program is in accordance with objectives of National Oral Health Program. Corporate social Responsibility is excellent option that provide resources instrumental in initiating projects and more importantly sustaining them. Public Private Not for Profit Partnership (PPNP) is another way to bridge the disparity in the present setting having a downstream effect at the grass root level.
A Comparison of Pain Scores in Neonatal Circumcision with or without Local Anesthesia in Jos, Nigeria

Introduction: Neonatal circumcisions are commonly performed in Nigeria, most often without anesthesia. The aim of this study was to determine whether anesthesia was required for neonatal circumcision. Materials and Methods: All new-born male neonates presenting for routine circumcision were considered for inclusion in the study. This was a randomized control study, comparing pain scores during circumcision with local anesthesia or without local anesthesia. A total of 72 neonates were randomly assigned to the two groups using computer-generated random numbers, with 36 in each group. The neonates were not matched for age or weight. All the anesthetic procedures and circumcisions were performed in identical manner by the principal investigators using the plastic bell technique. Approval for the study was obtained from the Research Ethics Committee of the hospital. Written voluntary informed consent was obtained from the parents of the neonates. Results: The mean age and weight of the neonates in the study were 17 ± 2 days and 3.2 ± 0.68 kg, respectively. The mean Neonatal/Infant pain score was 4.8 in the local anesthesia group and 6.0 in those without anesthesia. The mean transcutaneous PO2 was 90.47 ± 7.53 in those with anesthesia compared to 85.83 ± 5.61 in those without anesthesia. The mean heart rate was 133.88 ± 35.00 beats/min in the anesthesia group compared to 152.11 ± 79.80 in those without anesthesia. Neonates circumcised without local anesthesia had higher respiratory rate compared to those circumcised with local anesthesia. Conclusion: Neonates circumcised without local anesthesia had higher mean pain scores, heart rate, lower oxygen saturation and increased mean respiratory rate than those that had local anesthesia. Local anesthesia should be routinely used during neonatal circumcision.
Melatonin and Female Reproduction: An Expanding Universe

For more than a half century the hormone melatonin has been associated with vertebrate reproduction, particularly in the context of seasonal breeding. This association is due in large measure to the fact that melatonin secretion from the pineal gland into the peripheral circulation is a nocturnal event whose duration is reflective of night length, which of course becomes progressively longer during winter months and correspondingly shorter during the summer months. The nocturnal plasma melatonin signal is conserved in essentially all vertebrates and is accessed not just for reproductive rhythms, but for seasonal cycles of metabolic activities, immune functions, and behavioral expression. A vast literature on melatonin and vertebrate biology has accrued over the past 60 years since melatonin's discovery, including the broad topic of animal reproduction, which is far beyond the scope of this human-focused review. Although modern humans in the industrialized world appear in general to have little remaining reproductive seasonality, the relationships between melatonin and human reproduction continue to attract widespread scientific attention. The purpose of this chapter is to draw attention to some newer developments in the field, especially those with relevance to human fertility and reproductive medicine. As the vast majority of studies have focused on the female reproductive system, a discussion of the potential impact of melatonin on human male fertility will be left for others.
Metatranscriptomics Reveals Antibiotic-Induced Resistance Gene Expression in the Murine Gut Microbiota

Antibiotic resistance is a current and expanding threat to the practice of modern medicine. Antibiotic therapy has been shown to perturb the composition of the host microbiome with significant health consequences. In addition, the gut microbiome is known to be a reservoir of antibiotic resistance genes. Work has demonstrated that antibiotics can alter the collection of antibiotic resistance genes within the microbiome through selection and horizontal gene transfer. While antibiotics also have the potential to impact the expression of resistance genes, metagenomic-based pipelines currently lack the ability to detect these shifts. Here, we utilized a dual sequencing approach combining shotgun metagenomics and metatranscriptomics to profile how three antibiotics, amoxicillin, doxycycline, and ciprofloxacin, impact the murine gut resistome at the DNA and RNA level. We found that each antibiotic induced broad, but untargeted impacts on the gene content of the resistome. In contrast, changes in ARG transcript abundance were more targeted to the antibiotic treatment. Doxycycline and amoxicillin induced the expression of tetracycline and beta-lactamase resistance genes, respectively. Furthermore, the increased beta-lactamase resistance gene transcripts could contribute to an observed bloom of Bacteroides thetaiotaomicron during amoxicillin treatment. Based on these findings, we propose that the utilization of a dual sequencing methodology provides a unique capacity to fully understand the response of the resistome to antibiotic perturbation. In particular, the analysis of transcripts reveals that the expression and utilization of resistance genes is far narrower than their abundance at the genomic level would suggest.
Disruption of Transverse-Tubules Eliminates the Slow Force Response to Stretch in Isolated Rat Trabeculae

Ventricular muscle has a biphasic response to stretch. There is an immediate increase in force that coincides with the stretch which is followed by a second phase that takes several minutes for force to develop to a new steady state. The initial increase in force is due to changes in myofilament properties, whereas the second, slower component of the stretch response (known as the “slow force response” or SFR) is accompanied by a steady increase in Ca2+ transient amplitude. Evidence shows stretch-dependent Ca2+ influx during the SFR occurs through some mechanism that is continuously active for several minutes following stretch. Many of the candidate ion channels are located primarily in the t-tubules, which are consequently lost in heart disease. Our aim, therefore, was to investigate the impact of t-tubule loss on the SFR in non-failing cardiac trabeculae in which expression of the different Ca2+ handling proteins was not altered by any disease process. For comparison, we also investigated the effect of formamide detubulation of trabeculae on β-adrenergic activation (1 μM isoproterenol), since this is another key regulator of cardiac force. Measurement of intracellular calcium ([Ca2+]i) and isometric stress were made in RV trabeculae from rat hearts before, during and after formamide treatment (1.5 M for 5 min), which on washout seals the surface sarcolemmal t-tubule openings. Results showed detubulation slowed the time course of Ca2+ transients and twitch force, with time-to-peak, maximum rate-of-rise, and relaxation prolonged in trabeculae at optimal length (Lo). Formamide treatment also prevented development of the SFR following a step change in length from 90 to 100% Lo, and blunted the response to β-adrenergic activation (1 μM isoproterenol).
Role of Effector-Sensitivity Gene Interactions and Durability of Quantitative Resistance to Septoria Nodorum Blotch in Eastern U.S. Wheat

Important advances have been made in understanding the relationship of necrotrophic effectors (NE) and host sensitivity (Snn) genes in the Parastagonospora nodorum-wheat pathosystem. Yet much remains to be learned about the role of these interactions in determining wheat resistance levels in the field, and there is mixed evidence on whether breeding programs have selected against Snn genes due to their role in conferring susceptibility. SNB occurs ubiquitously in the U.S. Atlantic seaboard, and the environment is especially well suited to field studies of resistance to natural P. nodorum populations, as there are no other important wheat leaf blights. Insights into the nature of SNB resistance have been gleaned from multi-year data on phenotypes and markers in cultivars representative of the region’s germplasm. In this perspective article, we review the evidence that in this eastern region of the U.S., wheat cultivars have durable quantitative SNB resistance and Snn–NE interactions are of limited importance. This conclusion is discussed in light of the relevant available information from other parts of the world.
Gastrin, Cholecystokinin, Signaling, and Biological Activities in Cellular Processes

The structurally-related peptides, gastrin and cholecystokinin (CCK), were originally discovered as humoral stimulants of gastric acid secretion and pancreatic enzyme release, respectively. With the aid of methodological advances in biochemistry, immunochemistry, and molecular biology in the past several decades, our concept of gastrin and CCK as simple gastrointestinal hormones has changed considerably. Extensive in vitro and in vivo studies have shown that gastrin and CCK play important roles in several cellular processes including maintenance of gastric mucosa and pancreatic islet integrity, neurogenesis, and neoplastic transformation. Indeed, gastrin and CCK, as well as their receptors, are expressed in a variety of tumor cell lines, animal models, and human samples, and might contribute to certain carcinogenesis. In this review, we will briefly introduce the gastrin and CCK system and highlight the effects of gastrin and CCK in the regulation of cell proliferation and apoptosis in both normal and abnormal conditions. The potential imaging and therapeutic use of these peptides and their derivatives are also summarized.