Miracle-dz/UniFAR-FTUs huggingface dataset:
Precursors of the RNA World in Space: Detection of (Z)-1,2-ethenediol in the Interstellar Medium, a Key Intermediate in Sugar Formation

We present the first detection of (Z)-1,2-ethenediol, (CHOH)2, the enol form of glycolaldehyde, in the interstellar medium toward the G+0.693−0.027 molecular cloud located in the Galactic Center. We have derived a column density of (1.8 ± 0.1) × 1013 cm−2, which translates into a molecular abundance with respect to molecular hydrogen of 1.3 × 10−10. The abundance ratio between glycolaldehyde and (Z)-1,2-ethenediol is ∼5.2. We discuss several viable formation routes through chemical reactions from precursors such as HCO, H2CO, CHOH, or CH2CHOH. We also propose that this species might be an important precursor in the formation of glyceraldehyde (HOCH2CHOHCHO) in the interstellar medium through combination with the hydroxymethylene (CHOH) radical.
Exploration of Wire Array Metamaterials for the Plasma Axion Haloscope

A plasma haloscope has recently been proposed as a feasible approach to extend the search for dark matter axions above 10 GHz ( ∼ 40 µ eV), whereby the microwave cavity in a conventional axion haloscope is supplanted by a wire array metamaterial. Since the plasma frequency of a metamaterial is determined by its unit cell, and is thus a bulk property, a metamaterial resonator of any frequency can be made arbitrarily large, in contrast to a microwave cavity which incurs a steep penalty in volume with increasing frequency. To assess the actual potential of this concept as a practical dark matter haloscope, the basic properties of wire array metamaterials have been investigated through an extensive series of S 21 measurements in the 10 GHz range. This report presents some new systematics of wire array metamaterials themselves including the approach to full plasmonic behavior, the applicability of the semianalytic theory of Belov, and estimates of the loss term which bode favorably for the plasmonic haloscope application. This present work constitutes the ﬁrst precision test of the semianalytic theory of Belov et al., for which the predicted plasma frequency agrees with the experimental value at the 0.1% level.
Example-based Hypernetworks for Out-of-Distribution Generalization

As Natural Language Processing (NLP) algorithms continually achieve new milestones, out-of-distribution generalization remains a significant challenge. This paper addresses the issue of multi-source adaptation for unfamiliar domains: We leverage labeled data from multiple source domains to generalize to unknown target domains at training. Our innovative framework employs example-based Hypernetwork adaptation: a T5 encoder-decoder initially generates a unique signature from an input example, embedding it within the source domains' semantic space. This signature is subsequently utilized by a Hypernetwork to generate the task classifier's weights. We evaluated our method across two tasks - sentiment classification and natural language inference - in 29 adaptation scenarios, where it outpaced established algorithms. In an advanced version, the signature also enriches the input example's representation. We also compare our finetuned architecture to few-shot GPT-3, demonstrating its effectiveness in essential use cases. To our knowledge, this marks the first application of Hypernetworks to the adaptation for unknown domains.
Translation Consistent Semi-supervised Segmentation for 3D Medical Images

3D medical image segmentation methods have been successful, but their dependence on large amounts of voxel-level annotated data is a disadvantage that needs to be addressed given the high cost to obtain such annotation. Semi-supervised learning (SSL) solve this issue by training models with a large unlabelled and a small labelled dataset. The most successful SSL approaches are based on consistency learning that minimises the distance between model responses obtained from perturbed views of the unlabelled data. These perturbations usually keep the spatial input context between views fairly consistent, which may cause the model to learn segmentation patterns from the spatial input contexts instead of the segmented objects. In this paper, we introduce the Translation Consistent Co-training (TraCoCo) which is a consistency learning SSL method that perturbs the input data views by varying their spatial input context, allowing the model to learn segmentation patterns from visual objects. Furthermore, we propose the replacement of the commonly used mean squared error (MSE) semi-supervised loss by a new Cross-model confident Binary Cross entropy (CBC) loss, which improves training convergence and keeps the robustness to co-training pseudo-labelling mistakes. We also extend CutMix augmentation to 3D SSL to further improve generalisation. Our TraCoCo shows state-of-the-art results for the Left Atrium (LA) and Brain Tumor Segmentation (BRaTS19) datasets with different backbones. Our code is available at https://github.com/yyliu01/TraCoCo.
Understanding Robot Acceptance

This research was supported in part by a grant from the National Institutes of Health (National Institute on Aging) Grant P01 AG17211 under the auspices of the Center for Research and Education on Aging and Technology Enhancement (CREATE; www.create-center.org). The report was inspired by our collaboration with Willow Garage (www.willowgarage.com) who selected the Georgia Institute of Technology as a beta PR2 site for research (www.willowgarage.com/blog/2010/06/07/spotlight-georgia-tech). This project is a collaborative research effort on human-robot interaction between the Human Factors and Aging Laboratory (Co-Directors Wendy A. Rogers and Arthur D. Fisk; www.hfaging.org) and the Healthcare Robotics Laboratory (Director: Charles C. Kemp; www.healthcare-robotics.com). Many thanks to the researchers in both laboratories for their contributions.
Transformer Feed-Forward Layers Build Predictions by Promoting Concepts in the Vocabulary Space

Transformer-based language models (LMs) are at the core of modern NLP, but their internal prediction construction process is opaque and largely not understood. In this work, we make a substantial step towards unveiling this underlying prediction process, by reverse-engineering the operation of the feed-forward network (FFN) layers, one of the building blocks of transformer models. We view the token representation as a changing distribution over the vocabulary, and the output from each FFN layer as an additive update to that distribution. Then, we analyze the FFN updates in the vocabulary space, showing that each update can be decomposed to sub-updates corresponding to single FFN parameter vectors, each promoting concepts that are often human-interpretable. We then leverage these findings for controlling LM predictions, where we reduce the toxicity of GPT2 by almost 50%, and for improving computation efficiency with a simple early exit rule, saving 20% of computation on average.
Bacterial Competition Systems Share a Domain Required for Inner Membrane Transport of the Bacteriocin Pyocin G from Pseudomonas aeruginosa

Nuclease bacteriocins are potential antimicrobials for the treatment of antibiotic-resistant bacterial infections. While the mechanism of outer membrane translocation is beginning to be understood, the mechanism of inner membrane transport is not known. ABSTRACT Bacteria exploit a variety of attack strategies to gain dominance within ecological niches. Prominent among these are contact-dependent inhibition (CDI), type VI secretion (T6SS), and bacteriocins. The cytotoxic endpoint of these systems is often the delivery of a nuclease to the cytosol. How such nucleases translocate across the cytoplasmic membrane of Gram-negative bacteria is unknown. Here, we identify a small, conserved, 15-kDa domain, which we refer to as the inner membrane translocation (IMT) domain, that is common to T6SS and bacteriocins and linked to nuclease effector domains. Through fluorescence microscopy assays using intact and spheroplasted cells, we demonstrate that the IMT domain of the Pseudomonas aeruginosa-specific bacteriocin pyocin G (PyoG) is required for import of the toxin nuclease domain to the cytoplasm. We also show that translocation of PyoG into the cytosol is dependent on inner membrane proteins FtsH, a AAA+ATPase/protease, and TonB1, the latter more typically associated with transport of bacteriocins across the outer membrane. Our study reveals that the IMT domain directs the cytotoxic nuclease of PyoG to cross the cytoplasmic membrane and, more broadly, has been adapted for the transport of other toxic nucleases delivered into Gram-negative bacteria by both contact-dependent and contact-independent means. IMPORTANCE Nuclease bacteriocins are potential antimicrobials for the treatment of antibiotic-resistant bacterial infections. While the mechanism of outer membrane translocation is beginning to be understood, the mechanism of inner membrane transport is not known. This study uses PyoG as a model nuclease bacteriocin and defines a conserved domain that is essential for inner membrane translocation and is widespread in other bacterial competition systems. Additionally, the presented data link two membrane proteins, FtsH and TonB1, with inner membrane translocation of PyoG. These findings point to the general importance of this domain to the cellular uptake mechanisms of nucleases delivered by otherwise diverse and distinct bacterial competition systems. The work is also of importance for the design of new protein antibiotics.
Inhibition of Caspase 3 and Caspase 9 Mediated Apoptosis: A Multimodal Therapeutic Target in Traumatic Brain Injury

Traumatic brain injury (TBI) is one of the significant causes of death and morbidity, and it is hence a focus of translational research. Apoptosis plays an essential part in the pathophysiology of TBI, and its inhibition may help overcome TBI's negative consequences and improve functional recovery. Although physiological neuronal death is necessary for appropriate embryologic development and adult cell turnover, it can also drive neurodegeneration. Caspases are principal mediators of cell death due to apoptosis and are critical for the required cleavage of intracellular proteins of cells committed to die. Caspase-3 is the major executioner Caspase of apoptosis and is regulated by a range of cellular components during physiological and pathological conditions. Activation of Caspase-3 causes proteolyzation of DNA repair proteins, cytoskeletal proteins, and the inhibitor of Caspase-activated DNase (ICAD) during programmed cell death, resulting in morphological alterations and DNA damage that define apoptosis. Caspase-9 is an additional crucial part of the intrinsic pathway, activated in response to several stimuli. Caspases can be altered post-translationally or by modulatory elements interacting with the zymogenic or active form of a Caspase, preventing their activation. The necessity of Caspase-9 and -3 in diverse apoptotic situations suggests that mammalian cells have at least four distinct apoptotic pathways. Continued investigation of these processes is anticipated to disclose new Caspase regulatory mechanisms with consequences far beyond apoptotic cell death control. The present review discusses various Caspase-dependent apoptotic pathways and the treatment strategies to inhibit the Caspases potentially.
White paper: Oncofertility in pediatric patients with Wilms tumor

The survival of childhood Wilms tumor is currently around 90%, with many survivors reaching reproductive age. Chemotherapy and radiotherapy are established risk factors for gonadal damage and are used in both COG and SIOP Wilms tumor treatment protocols. The risk of infertility in Wilms tumor patients is low but increases with intensification of treatment including the use of alkylating agents, whole abdominal radiation or radiotherapy to the pelvis. Both COG and SIOP protocols aim to limit the use of gonadotoxic treatment, but unfortunately this cannot be avoided in all patients. Infertility is considered one of the most important late effects of childhood cancer treatment by patients and their families. Thus, timely discussion of gonadal damage risk and fertility preservation options is important. Additionally, irrespective of the choice for preservation, consultation with a fertility preservation (FP) team is associated with decreased patient and family regret and better quality of life. Current guidelines recommend early discussion of the impact of therapy on potential fertility. Since most patients with Wilms tumors are prepubertal, potential FP methods for this group are still considered experimental. There are no proven methods for FP for prepubertal males (testicular biopsy for cryopreservation is experimental), and there is just a single option for prepubertal females (ovarian tissue cryopreservation), posing both technical and ethical challenges. Identification of genetic markers of susceptibility to gonadotoxic therapy may help to stratify patient risk of gonadal damage and identify patients most likely to benefit from FP methods.
Revisiting the cumulative effects of drought on global gross primary productivity based on new long‐term series data (1982–2018)

Drought has broad and deep impacts on vegetation. Studies on the effects of drought on vegetation have been conducted over years. Recently, the cumulative effect of drought is recognized as another key factor affecting plant growth. However, global‐scale studies on this phenomenon are still lacking. Thus, based on new satellite based gross primary productivity (GPP) and multi‐temporal scale Standardized Precipitation Evapotranspiration Index data sets, we explored the cumulative effect duration (CED) of drought on global vegetation GPP and analyzed its variability across elevations and climatic zones. The main findings were as follows: (1) The cumulative effect of drought on GPP was widespread, with an average CED of 4.89 months. (2) CED of drought on GPP varied among vegetation types. Specifically, grasslands showed the longest duration, with an average value of 5.28 months, followed by shrublands (5.09 months), wetlands (5.03 months), croplands (4.85 months), savannas (4.58 months), and forestlands (4.57 months). (3) CED of drought on GPP changes with climate conditions. It decreased with the decrease of precipitation in the driest month (Pdry) and mean annual precipitation in tropical and arid climate zones, respectively. In both temperate and cold climate zones, CED of drought on GPP was shorter in areas with dry winter than that in areas with dry summer. It increased with the decrease of mean annual air temperature in tropical climate zones and decreased with the increase of summer temperature in temperate and cold climatic zones. (4) With increasing elevation, CED of drought on GPP showed a pattern of increasing (0–3000 m), then decreasing (3000–5000 m), and increasing again (>5000 m). Our findings highlight the heterogeneity of CED of drought on GPP, owing to differences in vegetation types, long‐term hydrothermal conditions, elevation, etc. The results could deepen our understanding of the effects of drought on global vegetation.
Association of clinically significant weight loss with number of patient visits and months of attendance at an Australian multidisciplinary weight management clinic

Despite the obesity epidemic, there are relatively few multidisciplinary obesity services in Australia, and only limited data on the effectiveness of these services. The aim of this study was to evaluate the effectiveness of a university hospital‐based weight management clinic—the ‘Healthy Weight Clinic’ in supporting patients to achieve clinically significant weight loss (≥5% reduction in body weight), weight maintenance, and changes in body composition. A retrospective review was conducted to determine weight and associated health outcomes in patients who attended an initial consultation in the first 2 years of the clinic—between March 2017 and March 2019. Follow up was at least 1 year for all patients. Patients who underwent bariatric surgery were excluded. Of 213 total patients, 172 patients attended more than one follow‐up consultation for lifestyle modification. Mean weight change and percentage total weight change at last follow‐up was −6.2 kg (SD 7.4) and − 6.0% (SD 6.9), respectively. For every additional clinic follow‐up, there was 21.4% increased odds of achieving clinically significant weight loss, and for every additional month of follow‐up, there was 10.1% increased odds of achieving clinically significant weight loss. Twenty percent of patients (34/172) maintained ≥5% of initial body weight loss for at least 1 year. Body composition measurements were also favourable, with significant changes in percentage skeletal muscle mass of +0.8% (SD 1.5) and in percentage fat mass by −1.4% (SD 3.2). Regular support in a structured holistic multidisciplinary obesity service enables patients to achieve clinically meaningful weight loss and improved skeletal muscle mass to body fat ratio, and maintain this loss for at least 1 year. Improved weight loss was associated with more patient visits and longer duration of attendance at the clinic.
Young, non‐Hispanic Black men and women exhibit divergent peripheral and cerebral vascular reactivity

What is the central question of the study? Do peripheral and cerebral vascular function differ between young non‐Hispanic Black men and women? What is the main finding and its importance? The non‐Hispanic Black women in this study presented greater peripheral conduit artery and cerebrovascular reactivity, yet similar peripheral microvascular function relative to the non‐Hispanic Black men. These preliminary findings suggest that young Black women and men possess divergent vascular function, possibly contributing to the unique non‐Hispanic Black sex differences in cardiovascular and cerebrovascular diseases.
Are DNNs Fooled by Extremely Unrecognizable Images?

Fooling images are a potential threat to deep neural networks (DNNs). These images are not recognizable to humans as natural objects, such as dogs and cats, but are misclassiﬁed by DNNs as natural-object classes with high conﬁdence scores. Despite their original design concept, existing fooling images retain some features that are characteristic of the target objects if looked into closely. Hence, DNNs can react to these features. In this paper, we address the question of whether there can be fooling images with no characteristic pattern of natural objects locally or globally. As a minimal case, we introduce single-color images with a few pixels altered, called sparse fooling images (SFIs). We ﬁrst prove that SFIs always exist under mild conditions for linear and nonlinear models and reveal that complex models are more likely to be vulnerable to SFI attacks. With two SFI generation methods, we demonstrate that in deeper layers, SFIs end up with similar features to those of natural images, and consequently, fool DNNs successfully. Among other layers, we discovered that the max pooling layer causes the vulnerability against SFIs. The defense against SFIs and transferability are also discussed. This study highlights the new vulnerability of DNNs by introducing a novel class of images that distributes extremely far from natural images.
Safety of Triage Self-assessment Using a Symptom Assessment App for Walk-in Patients in the Emergency Care Setting: Observational Prospective Cross-sectional Study

Background Increasing use of emergency departments (EDs) by patients with low urgency, combined with limited availability of medical staff, results in extended waiting times and delayed care. Technological approaches could possibly increase efficiency by providing urgency advice and symptom assessments. Objective The purpose of this study is to evaluate the safety of urgency advice provided by a symptom assessment app, Ada, in an ED. Methods The study was conducted at the interdisciplinary ED of Marburg University Hospital, with data collection performed between August 2019 and March 2020. This study had a single-center cross-sectional prospective observational design and included 378 patients. The app’s urgency recommendation was compared with an established triage concept (Manchester Triage System [MTS]), including patients from the lower 3 MTS categories only. For all patients who were undertriaged, an expert physician panel assessed the case to detect potential avoidable hazardous situations (AHSs). Results Of 378 participants, 344 (91%) were triaged the same or more conservatively and 34 (8.9%) were undertriaged by the app. Of the 378 patients, 14 (3.7%) had received safe advice determined by the expert panel and 20 (5.3%) were considered to be potential AHS. Therefore, the assessment could be considered safe in 94.7% (358/378) of the patients when compared with the MTS assessment. From the 3 lowest MTS categories, 43.4% (164/378) of patients were not considered as emergency cases by the app, but could have been safely treated by a general practitioner or would not have required a physician consultation at all. Conclusions The app provided urgency advice after patient self-triage that has a high rate of safety, a rate of undertriage, and a rate of triage with potential to be an AHS, equivalent to telephone triage by health care professionals while still being more conservative than direct ED triage. A large proportion of patients in the ED were not considered as emergency cases, which could possibly relieve ED burden if used at home. Further research should be conducted in the at-home setting to evaluate this hypothesis. Trial Registration German Clinical Trial Registration DRKS00024909; https://www.drks. de/drks_web/navigate.do? navigationId=trial.HTML&TRIAL_ID=DRKS00024909
Gratitude, self-efficacy, and health-related quality of life in individuals with Parkinson’s Disease

ABSTRACT Parkinson’s Disease (PD) is a chronic disease that can affect the physical, psychological, and social functioning of an individual. Minimal research has examined the relationship among positive psychological variables such as gratitude and self-efficacy and their relationship with health-related quality of life (HRQOL) in this population. Gender analyses have also been limited. The aim of this exploratory, cross-sectional study was to examine the relationship among gratitude, self-efficacy, and HRQOL by gender in individuals with Parkinson’s Disease (PD). Participants included 102 individuals with PD (55 women; 42 men; 5 did not report gender) who completed questionnaires on gratitude (Gratitude Questionnaire-6), self-efficacy (General Self-Efficacy Scale), and HRQOL problems (Parkinson’s Disease Questionnaire-39). Although there were no gender differences between gratitude, self-efficacy, or health-related quality of life problems, there were key gender differences in how those variables were related. Gratitude was associated with more HRQOL problems for women than men, whereas self-efficacy was associated with more HRQOL problems for men than women. In addition, self-efficacy emerged as a more important predictor of HRQOL problems for women and men than gratitude. This research could lead to targeted interventions by gender aimed at improving HRQOL in individuals with PD, particularly in building self-efficacy.