Miracle-dz/UniFAR-FTUs huggingface dataset:
A Framework to Evaluate the Benefit of Seismic Upgrading

Earthquakes are among the most catastrophic natural disasters. Existing buildings constructed in earthquake prone locations prior to 1970s generally do not meet the criteria of modern seismic design codes. Structural seismic upgrading is a very effective strategy to mitigate the earthquake risk for existing structures. However, in many cases, seismic upgrade design is criticized as overly conservative resulting in expensive structural interventions. The present study proposes a framework that combines key elements of the performance-based seismic design with the actuarial “frequency-severity” method to perform a cost-benefit analysis of structural seismic upgrading. A curve that quantifies the avoided losses and casualties for different levels of partial seismic upgrade at the site of interest is introduced. This curve provides a tool that enables engineers to optimize rapidly, at a preliminary design level, the seismic upgrading strategy using a cost-benefit analysis. The proposed framework is applied to existing residential buildings located in two different seismic hazard environments, namely Zurich (Switzerland) and L'Aquila (Italy), to identify the optimal seismic upgrading level.
NY-ESO-1-specific redirected T cells with endogenous TCR knockdown mediate tumor response and cytokine release syndrome

Background Because of the shortage of ideal cell surface antigens, the development of T-cell receptor (TCR)-engineered T cells (TCR-T) that target intracellular antigens such as NY-ESO-1 is a promising approach for treating patients with solid tumors. However, endogenous TCRs in vector-transduced T cells have been suggested to impair cell-surface expression of transduced TCR while generating mispaired TCRs that can become self-reactive. Methods We conducted a first-in-human phase I clinical trial with the TCR-transduced T-cell product (TBI-1301) in patients with NY-ESO-1-expressing solid tumors. In manufacturing TCR-T cells, we used a novel affinity-enhanced NY-ESO-1-specific TCR that was transduced by a retroviral vector that enables siRNA (small interfering RNA)-mediated silencing of endogenous TCR. The patients were divided into two cohorts. Cohort 1 was given a dose of 5×108 cells (whole cells including TCR-T cells) preconditioned with 1500 mg/m2 cyclophosphamide. Cohort 2 was given 5× 109 cells preconditioned with 1500 mg/m2 cyclophosphamide. Results In vitro study showed that both the CD8+ and CD4+ T fractions of TCR-T cells exhibited cytotoxic effects against NY-ESO-1-expressing tumor cells. Three patients and six patients were allocated to cohort 1 and cohort 2, respectively. Three of the six patients who received 5×109 cells showed tumor response, while three patients developed early-onset cytokine release syndrome (CRS). One of the patients developed a grade 3 lung injury associated with the infiltration of the TCR-T cells. No siRNA-related adverse events other than CRS were observed. Cytokines including interleukin 6 I and monocyte chemotactic protein-1/chemokine (C-C motif) ligand (CCL2) increased in the sera of patients with CRS. In vitro analysis showed these cytokines were not secreted from the T cells infused. A significant fraction of the manufactured T cells in patients with CRS was found to express either CD244, CD39, or both at high levels. Conclusions The trial showed that endogenous TCR-silenced and affinity-enhanced NY-ESO-1 TCR-T cells were safely administered except for grade 3 lung injury. The TCR-T cell infusion exhibited significant tumor response and early-onset CRS in patients with tumors that express NY-ESO-1 at high levels. The differentiation properties of the manufactured T cells may be prognostic for TCR-T-related CRS. Trial registration number NCT02366546.
High-resolution finite volume methods for acoustics in a rapidly-varying heterogeneous medium

Behavior of acoustic waves in a rapidly-varying heterogeneous medium may be investigated analytically via various homogenization theories. Alternatively, one can solve the heterogeneous equations directly with a numerical method. Although a numerical solution can be diicult with standard methods, we have found the equations can be solved directly using the high-resolution multi-dimensional nite volume methods of clawpack, which are based on solving "Riemann Problems". The acoustics equations in a heterogeneous medium with density (x) and bulk modulus (x) may be written as the variable-coeecient hyperbolic system q t + A(x)q x = 0; (1) where q = " p u # ; A = " 0 (x) 1==(x) 0 # : (2) Clawpack (Conservation LAWs PACKage) is a high-resolution nite volume method based on the solving of a Riemann problem at each grid point in order to calculate the left and right going uctuations 2], 3]. Let Q i denote the cell average of q over the i'th cell. Let i , i be the material parameters in this cell and c i = p i == i the wave speed. The \Riemann problem" at the interface between gird cells i ? 1 and i, say, consists of the equation (2) with piecewise constant initial data given by the cell averages Q i? 1 and Q i in the adjacent cells. The solution is found by decomposing
Community and bystander interventions for the prevention of suicide: Protocol for a systematic review

Suicide has a wide reaching and devastating impact on society. This article presents a study protocol for a systematic review of the literature on community and bystander interventions to reduce the incidence of suicide. These interventions are focused on people other than the person at-risk and are designed to increase awareness of warning signs and knowledge of how to most effectively respond. While there have been many studies undertaken on community and bystander intervention programs, we lack a synthesis of evidence regarding how an effective program is created and implemented. The proposed systematic review will address this gap by presenting the first comprehensive review on this topic. The specific aims of the review are to: (1) determine whether community and bystander interventions effectively increase bystander action to prevent suicide and, if so; (2) to understand what creates an effective community suicide intervention. The insights gathered will inform policy and guide investment in better evidence-based suicide interventions for the future.
Near-Complete Genome Sequence of an Avian Orthoavulavirus Type 13 Strain Isolated in South Korea in 2020

We report the near-complete genome sequence of an avian orthoavulavirus 13 (AOAV-13) strain isolated from a wild goose fecal sample collected in South Korea in early 2020. The AOAV-13 sequence had a unique 3′ trailer region, including an 84-nucleotide (nt) deletion and a 24-nt insertion, compared to the most closely related Chinese genome sequence from 2015. ABSTRACT We report the near-complete genome sequence of an avian orthoavulavirus 13 (AOAV-13) strain isolated from a wild goose fecal sample collected in South Korea in early 2020. The AOAV-13 sequence had a unique 3′ trailer region, including an 84-nucleotide (nt) deletion and a 24-nt insertion, compared to the most closely related Chinese genome sequence from 2015.
Association of age, hormonal, and lifestyle factors with the Leydig cell biomarker INSL3 in aging men from the European Male Aging Study cohort

Aging in men is accompanied by a broad range of symptoms, including sexual dysfunction, cognitive and musculoskeletal decline, obesity, type 2 diabetes, cardiovascular disease and hypertension, organ degeneration/failure, and increasing neoplasia, some of which are associated with declining levels of Leydig cell‐produced testosterone. High natural biological variance, together with multiple factors that can modulate circulating testosterone concentration, may influence its interpretation and clinical implications. Insulin‐like peptide 3 is a biomarker of Leydig cell function that might provide complementary information on testicular health and its downstream outcomes.
Multicenter evaluation of the IL‐3‐pSTAT5 assay to assess the potency of cryopreserved stem cells from cord blood units: The BEST Collaborative study

The IL‐3‐pSTAT5 assay, a new, rapid, and standardized flow‐cytometry‐based assay may compensate for several limitations of the colony‐forming unit (CFU) assay typically used for stem cell potency assessments of cord blood units (CBU). We performed an inter‐laboratory evaluation of the performance of this new assay.
Using Twitter Data for Cohort Studies of Drug Safety in Pregnancy: Proof-of-concept With β-Blockers

Background Despite the fact that medication is taken during more than 90% of pregnancies, the fetal risk for most medications is unknown, and the majority of medications have no data regarding safety in pregnancy. Objective Using β-blockers as a proof-of-concept, the primary objective of this study was to assess the utility of Twitter data for a cohort study design—in particular, whether we could identify (1) Twitter users who have posted tweets reporting that they took medication during pregnancy and (2) their associated pregnancy outcomes. Methods We searched for mentions of β-blockers in 2.75 billion tweets posted by 415,690 users who announced their pregnancy on Twitter. We manually reviewed the matching tweets to first determine if the user actually took the β-blocker mentioned in the tweet. Then, to help determine if the β-blocker was taken during pregnancy, we used the time stamp of the tweet reporting intake and drew upon an automated natural language processing (NLP) tool that estimates the date of the user’s prenatal time period. For users who posted tweets indicating that they took or may have taken the β-blocker during pregnancy, we drew upon additional NLP tools to help identify tweets that report their pregnancy outcomes. Adverse pregnancy outcomes included miscarriage, stillbirth, birth defects, preterm birth (<37 weeks gestation), low birth weight (<5 pounds and 8 ounces at delivery), and neonatal intensive care unit (NICU) admission. Normal pregnancy outcomes included gestational age ≥37 weeks and birth weight ≥5 pounds and 8 ounces. Results We retrieved 5114 tweets, posted by 2339 users, that mention a β-blocker, and manually identified 2332 (45.6%) tweets, posted by 1195 (51.1%) of the users, that self-report taking the β-blocker. We were able to estimate the date of the prenatal time period for 356 pregnancies among 334 (27.9%) of these 1195 users. Among these 356 pregnancies, we identified 257 (72.2%) during which the β-blocker was or may have been taken. We manually verified an adverse pregnancy outcome—preterm birth, NICU admission, low birth weight, birth defects, or miscarriage—for 38 (14.8%) of these 257 pregnancies. We manually verified a gestational age ≥37 weeks for 198 (90.4%) and a birth weight ≥5 pounds and 8 ounces for 50 (22.8%) of the 219 pregnancies for which we did not identify an adverse pregnancy outcome. Conclusions Our ability to detect pregnancy outcomes for Twitter users who posted tweets reporting that they took or may have taken a β-blocker during pregnancy suggests that Twitter can be a complementary resource for cohort studies of drug safety in pregnancy.
Impact of prior SARS-CoV-2 infection and COVID-19 vaccination on the subsequent incidence of COVID-19: a multicentre prospective cohort study among UK healthcare workers – the SIREN (Sarscov2 Immunity & REinfection EvaluatioN) study protocol

Introduction Understanding the effectiveness and durability of protection against SARS-CoV-2 infection conferred by previous infection and COVID-19 is essential to inform ongoing management of the pandemic. This study aims to determine whether prior SARS-CoV-2 infection or COVID-19 vaccination in healthcare workers protects against future infection. Methods and analysis This is a prospective cohort study design in staff members working in hospitals in the UK. At enrolment, participants are allocated into cohorts, positive or naïve, dependent on their prior SARS-CoV-2 infection status, as measured by standardised SARS-CoV-2 antibody testing on all baseline serum samples and previous SARS-CoV-2 test results. Participants undergo monthly antibody testing and fortnightly viral RNA testing during follow-up and based on these results may move between cohorts. Any results from testing undertaken for other reasons (eg, symptoms, contact tracing) or prior to study entry will also be captured. Individuals complete enrolment and fortnightly questionnaires on exposures, symptoms and vaccination. Follow-up is 12 months from study entry, with an option to extend follow-up to 24 months. The primary outcome of interest is infection with SARS-CoV-2 after previous SARS-CoV-2 infection or COVID-19 vaccination during the study period. Secondary outcomes include incidence and prevalence (both RNA and antibody) of SARS-CoV-2, viral genomics, viral culture, symptom history and antibody/neutralising antibody titres. Ethics and dissemination The study was approved by the Berkshire Research Ethics Committee, Health Research Authority (IRAS ID 284460, REC reference 20/SC/0230) on 22 May 2020; the vaccine amendment was approved on 12 January 2021. Participants gave informed consent before taking part in the study. Regular reports to national and international expert advisory groups and peer-reviewed publications ensure timely dissemination of findings to inform decision making. Trial registration number ISRCTN11041050.
Peripubertal requirement of Tsg101 in maintaining the integrity of membranous structures in mouse oocytes

As a component of Endosomal Sorting Complex Required for Transport (ESCRT) complex I, the tumor susceptibility gene 101 (Tsg101) carries out multiple functions. In this work, we report that oocyte‐specific deletion of tumor susceptibility gene 101 (Tsg101) leads to age‐dependent oocyte demise in mice.
The diagnosis and management of CMV colitis in IBD patients shows high practice variation: a national survey among gastroenterologists

Abstract Background Clinical guidelines on cytomegalovirus (CMV) colitis in inflammatory bowel disease (IBD) are hampered by the low quality of evidence. In this study, we aim to explore the attitude and management of CMV colitis in IBD among gastroenterologists. Methods A web-based survey was distributed to adult and pediatric gastroenterologists and trainees in academic and general hospitals in the Netherlands. The survey comprised data collection on respondents’ demographics, attitudes towards the importance of CMV infection in IBD on a visual analogue scale (from 0 to 100), and diagnostic and therapeutic strategies. Results A total of 73/131 invited respondents from 32 hospitals completed the survey (response rate of 56%). The importance of CMV infection was scored at a median 74/100. Respondents indicated CMV testing as appropriate in the clinical setting of steroid-refractory colitis (69% of respondents), hospitalized patients with active colitis (64%), immunomodulator or biological refractory colitis (55%) and active colitis irrespective of medication use (14%). CMV diagnostics include histology of colonic biopsies (88% of respondents), tissue CMV PCR (43%), serum CMV PCR (60%), CMV serology (25%) and fecal CMV PCR (4%). 82% of respondents start antiviral therapy after a positive CMV test on colonic biopsies (histology or PCR). Conclusions Most Dutch gastroenterologists acknowledge the importance of CMV colitis in IBD. Strategies vary greatly with regard to the indication for testing and diagnostic method, as well as indication for the start of antiviral therapy. These findings underline the need for pragmatic clinical studies on different management strategies, in order to reduce practice variation and improve the quality of care. Summary of the established knowledge on this subject: The clinical significance of CMV-associated colitis in IBD remains a matter of debate Recommendations regarding CMV colitis in current international guidelines are based on low to moderate evidence levels and different diagnostic strategies are proposed What are the significant and/or new findings of this study? We show that there is a high practice variation of diagnosis and management of CMV colitis in IBD amongst adult and pediatric gastroenterologists This study underlined the need for pragmatic studies and guidelines on different management strategies including cut-off values to start therapy
Neuromorphic computing hardware and neural architectures for robotics

Neuromorphic hardware enables fast and power-efficient neural network-based artificial intelligence that is well suited to solving robotic tasks. Neuromorphic algorithms can be further developed following neural computing principles and neural network architectures inspired by biological neural systems. In this Viewpoint, we provide an overview of recent insights from neuroscience that could enhance signal processing in artificial neural networks on chip and unlock innovative applications in robotics and autonomous intelligent systems. These insights uncover computing principles, primitives, and algorithms on different levels of abstraction and call for more research into the basis of neural computation and neuronally inspired computing hardware.
Integrity of hypothalamic–pituitary‐testicular axis in exceptional longevity

Hypothalamic integrity increasingly is being recognized as a marker of healthy longevity in rodent models. Insight into hypothalamic function in humans with exceptional longevity can be gained via investigation of the hypothalamic–pituitary‐testicular (HPT) axis in men with exceptional longevity. This study aimed to characterize the HPT axis function, defined by levels of testosterone (T) and luteinizing hormone (LH), in 84 Ashkenazi Jewish men aged 90–106 years. We found that 94% of men exhibited preserved hypothalamic–pituitary function, as evidenced by either normal testosterone and LH levels (25%) or an appropriate rise in LH in response to aging‐related primary testicular dysfunction (69%), a hormone pattern mirroring female menopause. Total T level was not associated with metabolic parameters or survival. These results demonstrate a high prevalence of testicular dysfunction with preserved hypothalamic–pituitary function in men with exceptional longevity. Thus, the role of hypothalamic integrity and HPT axis in healthy aging warrants further investigation.
Bidirectional Spatial-Temporal Adaptive Transformer for Urban Traffic Flow Forecasting

Urban traffic forecasting is the cornerstone of the intelligent transportation system (ITS). Existing methods focus on spatial-temporal dependency modeling, while two intrinsic properties of the traffic forecasting problem are overlooked. First, the complexity of diverse forecasting tasks is nonuniformly distributed across various spaces (e.g., suburb versus downtown) and times (e.g., rush hour versus off-peak). Second, the recollection of past traffic conditions is beneficial to the prediction of future traffic conditions. Based on these properties, we propose a bidirectional spatial-temporal adaptive transformer (Bi-STAT) for accurate traffic forecasting. Bi-STAT adopts an encoder–decoder architecture, where both the encoder and the decoder maintain a spatial-adaptive transformer and a temporal-adaptive transformer structure. Inspired by the first property, each transformer is designed to dynamically process the traffic streams according to their task complexities. Specifically, we realize this by the recurrent mechanism with a novel dynamic halting module (DHM). Each transformer performs iterative computation with shared parameters until DHM emits a stopping signal. Motivated by the second property, Bi-STAT utilizes one decoder to perform the present $\rightarrow $ past recollection task and the other decoder to perform the present $\rightarrow $ future prediction task. The recollection task supplies complementary information to assist and regularize the prediction task for a better generalization. Through extensive experiments, we show the effectiveness of each module in Bi-STAT and demonstrate the superiority of Bi-STAT over the state-of-the-art baselines on four benchmark datasets. The code is available at https://github.com/chenchl19941118/Bi-STAT.git.
Ageing meets kidney disease

ABSTRACT Chronic kidney disease (CKD) is defined as abnormalities of kidney structure or function, present for ˃3 months, with implications for health. The most used diagnostic criteria are a urinary albumin: creatinine ratio ≥30 mg/g or an estimated glomerular filtration rate (eGFR) <60 mL/min/1.73 m2. Either of these diagnostic thresholds is associated with adverse health outcomes. GFR decreases with age and the prevalence of CKD is highest in older adults; moreover, the presence of CKD is associated with an increased risk of all-cause and cardiovascular death related to accelerated ageing in all age ranges, and the absolute increase in risk is highest for those aged ˃75 years. Indeed, premature death is a more common outcome than CKD progression to kidney failure requiring kidney replacement therapy. The progressive ageing of the world population contributes to the projection that CKD will become the second most common cause of death before the end of the century in countries with long life expectancy. The current collection of selected studies on kidney disease and ageing published in Age&Ageing, NDT and CKJ provides an overview of key topics, including cognitive decline, sarcopaenia, wasting and cardiovascular and non-cardiovascular morbidity and mortality, the management of kidney failure and gender differences in CKD progression.
Biomarkers of Neuroinflammation in Traumatic Brain Injury

Traumatic brain injury (TBI) is characterized by neuroinflammation and structural damage leading to symptoms and altered brain function. Biomarkers are useful in understanding neuroinflammation and correlations with TBI sequalae. The purpose of this paper is to identify and discuss biomarkers of neuroinflammation used to study TBI and its sequalae. A systematic review was conducted using PubMed, CINAHL, Embase, and Web of Science. A total of 350 articles met criteria; 70 used biomarkers. PRISMA criteria were used for Quality Assessment. Articles included reviews (n = 17), case-control (n = 25), cross-sectional (n = 25) studies, and randomized controlled trials (n = 3). Twenty-seven biomarkers were identified, including inflammasomes, cytokines, neuropeptides, complement complexes, miRNA and exosomes, and glial cell-specific proteins. Biomarkers aid in predicting morbidity and mortality and advance our understanding of neuroinflammation in TBI. This systematic review advances our understanding of the neuroinflammatory response to better enable nurses and clinicians to provide informed care of TBI patients.