Miracle-dz/UniFAR-FTUs huggingface dataset:
TP53 and RB1 alterations characterize poor prognostic subgroups in pediatric acute myeloid leukemia

Pediatric acute myeloid leukemia (AML) is a poor prognostic subtype of pediatric leukemia. However, the detailed characteristics of many genetic abnormalities are yet to be established in this disease. Although TP53 and RB1 are established as representative tumor suppressor genes in various cancers, alterations of these two genes, especially RB1, have not been characterized in pediatric AML. We performed next‐generation sequencing in 328 pediatric AML patients from the Japanese AML‐05 trial to ascertain TP53 and RB1 alterations, and their prognostic implications. We identified seven patients with TP53 alterations (2.1%) and six patients with RB1 alterations (1.8%). These alterations were found in only patients without RUNX1::RUNX1T1, CBFB::MYH11, or KMT2A rearrangements. TP53 and RB1 were frequently co‐deleted with their neighboring genes PRPF8 and ELF1, respectively. Patients with TP53 alterations had significantly lower 5‐year overall survival (OS; 14.3% vs. 71.4%, p < 0.001) and lower 5‐year event‐free survival (EFS; 0% vs. 56.3%, p < 0.001); similarly, patients with RB1 had significantly lower 5‐year OS (0% vs. 71.8%, p < 0.001) and lower 5‐year EFS (0% vs. 56.0%, p < 0.001) when compared to patients without these alterations. In gene expression analyses, oxidative phosphorylation, glycolysis, and protein secretion were upregulated in patients with TP53 and/or RB1 alterations. Additionally, Kaplan–Meier analysis revealed that high expressions of SLC2A5, KCNAB2, and CD300LF were related to poor OS of non‐core‐binding factor AML patients (p < 0.001, p = 0.001, and p = 0.021, respectively). This study will contribute to the development of risk‐stratified therapy and precision medicine in pediatric AML.
Analysis of perioperative corticosteroid therapy in children undergoing cardiac surgery: A systematic review and meta‐analysis

The advantages and disadvantages of using corticosteroids in children undergoing cardiac surgery is still contentious. To examine how perioperative corticosteroids affect postoperative mortality and clinical outcomes in pediatric cardiac surgery with cardiopulmonary bypass (CPB). We used MEDLINE, EMBASE, and the Cochrane Database to conduct a comprehensive search up through January 2023. Children aged 0–18 undergoing cardiac surgery were included in the meta‐analysis of randomized controlled studies comparing perioperative corticosteroids with other therapeutic therapies, placebo, or no treatment. All‐cause hospital mortality was the primary endpoint of the study. Hospitalization duration was a secondary result. The Cochrane Risk of Bias Assessment Tool was used to evaluate the research quality. Ten trials and 7798 pediatric participants were included in our analysis. Children taking corticosteroids had no significant difference in all‐cause in‐hospital mortality using a random‐effect model with relative risk (RR) = 0.38, 95% confidence interval (CI) = 0.16–0.91, I2 = 79%, p = . 03 for methylprednisolone and RR = 0.29, 95% CI = 0.09–0.97, I2 = 80%, p = . 04. For the secondary outcome, there was a significant difference between the corticosteroid and placebo groups, with pooled standard mean difference (SMD) = −0.86, 95% CI = −1.57 to −0.15, I2 = 85%, p = . 02 for methylprednisolone and SMD = −0.97, 95% CI −1.90 to −0.04, I2 = 83%, p = . 04 for dexamethasone. Perioperative corticosteroids may not improve mortality, but they reduce hospital stay compared to placebo. Further evidence from randomized controlled studies with larger samples is required for approaching at a valid conclusion.
Characteristics of Intimate Partner Violence and Survivor’s Needs During the COVID-19 Pandemic: Insights From Subreddits Related to Intimate Partner Violence

Intimate partner violence (IPV) increased during the COVID-19 pandemic. Collecting actionable IPV-related data from conventional sources (e.g., medical records) was challenging during the pandemic, generating a need to obtain relevant data from non-conventional sources, such as social media. Social media, like Reddit, is a preferred medium of communication for IPV survivors to share their experiences and seek support with protected anonymity. Nevertheless, the scope of available IPV-related data on social media is rarely documented. Thus, we examined the availability of IPV-related information on Reddit and the characteristics of the reported IPV during the pandemic. Using natural language processing, we collected publicly available Reddit data from four IPV-related subreddits between January 1, 2020 and March 31, 2021. Of 4,000 collected posts, we randomly sampled 300 posts for analysis. Three individuals on the research team independently coded the data and resolved the coding discrepancies through discussions. We adopted quantitative content analysis and calculated the frequency of the identified codes. 36% of the posts (n = 108) constituted self-reported IPV by survivors, of which 40% regarded current/ongoing IPV, and 14% contained help-seeking messages. A majority of the survivors’ posts reflected psychological aggression, followed by physical violence. Notably, 61.4% of the psychological aggression involved expressive aggression, followed by gaslighting (54.3%) and coercive control (44.3%). Survivors’ top three needs during the pandemic were hearing similar experiences, legal advice, and validating their feelings/reactions/thoughts/actions. Albeit limited, data from bystanders (survivors’ friends, family, or neighbors) were also available. Rich data reflecting IPV survivors’ lived experiences were available on Reddit. Such information will be useful for IPV surveillance, prevention, and intervention.
Is this the solution to wellbeing and burnout management for the critical care workforce? A parallel, interventional, feasibility and realist informed pilot randomized control trial protocol

Critical care healthcare professionals are at high risk in developing burnout and mental health disorders including depression, anxiety, and post-traumatic stress disorder. High demands and the lack of resources lead to decreased job performance and organizational commitment, low work engagement, and increases emotional exhaustion and feelings of loneliness. Peer support and problem-solving approaches demonstrate promising evidence as it targets workplace loneliness, emotional exhaustion, promotes work engagement, and supports adaptive coping behaviors. Tailoring of interventions have also shown to be effective in influencing attitudes and behavior changes, attending to the individual experience and specific needs of end-users. The purpose of this study is to assess the feasibility and user-perceived acceptability of a combined intervention (Individualized Management Plan (IMP) and Professional Problem-Solving Peer (PPSP) debrief) in critical care healthcare professionals. This protocol was registered in the Australian and New Zealand Clinical Trials Registry (ACTRN12622000749707p). A two-arm randomized controlled trial, with pre-post-follow-up repeated measures intergroup design with 1:1 allocation ratio to either 1) treatment group–IMP and PPSP debrief, or 2) active control group–informal peer debrief. The primary outcomes will be conducted by assessing the recruitment process enrolment, intervention delivery, data collection, completion of assessment measures, user engagement and satisfaction. The secondary outcomes will explore preliminary effectiveness of the intervention using self-reported questionnaire instruments from baseline to 3-months. This study will provide the interventions’ feasibility and acceptability data for critical care healthcare professionals and will be used to inform a future, large-scale trial testing efficacy.
Librarian and Researcher Assessments of Search Result Relevance: How Well Do They Align?

Abstract Conducting comprehensive but efficient literature searches for complex evidence syntheses involves selecting databases that will retrieve the greatest number of relevant results on the question. Lack of a comprehensive single database on allied health educational topics challenges those seeking such literature. In this study, six participants contributed research questions on instructional methods and materials for allied health patients, caregivers, and future health professionals. Two health sciences librarians created search strategies for these questions and searched eleven databases. Both the librarians and the six participants evaluated the search results using a rubric based on PICO to assess extent of alignment between the librarians’ and requestors’ relevance judgments. Intervention, Outcome, and Assessment Method constituted the most frequent bases for assessments of relevance by both librarians and participants. The librarians were more restrictive in all of their assessments except in a preliminary search yielding twelve citations without abstracts. The study’s results could be used to identify effective techniques for reference interviewing, selecting databases, and weeding search results.
Alteration of Lipid Profile Between Subclinical Hypothyroidism and Well-Matched Controls: A Meta-Analysis

Abstract In previous studies, subclinical hypothyroidism (SCH) has been associated with altered lipid profiles. However, since the discrepancy between these study results may reside in the great heterogeneity of the populations studied, this relationship is controversial. This study aimed to explore the changes in total cholesterol (TC), triglycerides (TG), low-density lipoprotein cholesterol (LDL-c), and high-density lipoprotein cholesterol (HDL-c) between subclinical hypothyroidism (SCH) and well-matched euthyroid (EU) groups. Multiple databases were searched for publications before December 1, 2021, including cross-sectional studies on the association between SCH and lipid profile matched by age, gender, and BMI. Twenty-five articles with 3347 participants were included for meta-analysis. The results showed that the TC, TG, and LDL-c levels of the SCH groups were higher than the EU groups (TC, SMD=0.49, 95% CI 0.27, 0.71, p<0.001) (TG, SMD=0.43, 95% CI 0.21, 0.64, p<0.05 ) (LDL-c, SMD=0.75, 95% CI 0.46, 1.03, p<0.001 ). The HDL-c levels of the SCH group were lower than the control group (SMD=–0.53, 95% CI –0.81, –0.25, p<0.05). SCH has a larger impact on LDL-c than the other three indicators. After subgroup analyses, there was a larger impact on lipid alteration in the subgroup of TSH>10 μIU/ml, especially on LDL-c. This study found that SCH was associated with altered lipid profiles. Appropriate clinical treatment may be needed to prevent dyslipidemia and related diseases.
THE 3D BEAM DYNAMICS WITH THE SPACE CHARGE IN THE LOW AND MIDDLE ENERGY SUPER-CONDUCTING OPTION OF HIPPI

For the low and middle energy of the High Intensity Proton Pulse Injector (HIPPI) a superconducting option is considered.The 3D beam dynamics simulation results in the Slot and the Finger-Slot sections covering the energy range from 3 to 160 MeV are presented. The optimization aim is the increase of beam current together with the reduction of emittance growth, beam losses and costs. The slot structure is compared with the conventional spoke structure. LOW ENERGY RANGE 3-20 MEV The usage of a conventional superconducting structure just after RFQ for acceleration of high intensity beam is complicated because of focusing problems in transverse plane. This caused by the long focusing period. For the low energy part, when the beta is small the coldwarm transitions occupy significant part of the focusing period. On the other hand, together with the high accelerating gradient in the superconducting linear accelerator the defocusing factor is high. To improve the focusing one can increase the transverse phase advance either by the quadrupole strengths increasing or by the focusing period length decreasing. Because of stability problems the phase advance per focusing period is restricted by the limit of 90°. The focusing period can be shortened only due to the smaller number of accelerating gaps per period. However in this case the real estate gradient of the structure becomes lower, and the longitudinal motion is strongly perturbed by the drift. One of the solutions could be the installation of superconducting focusing elements into one cryostat
Extracting social determinants of health from clinical note text with classification and sequence-to-sequence approaches

OBJECTIVE Social determinants of health (SDOH) are nonmedical factors that can influence health outcomes. This paper seeks to extract SDOH from clinical texts in the context of the National NLP Clinical Challenges (n2c2) 2022 Track 2 Task. MATERIALS AND METHODS Annotated and unannotated data from the Medical Information Mart for Intensive Care III (MIMIC-III) corpus, the Social History Annotation Corpus, and an in-house corpus were used to develop 2 deep learning models that used classification and sequence-to-sequence (seq2seq) approaches. RESULTS The seq2seq approach had the highest overall F1 scores in the challenge's 3 subtasks: 0.901 on the extraction subtask, 0.774 on the generalizability subtask, and 0.889 on the learning transfer subtask. DISCUSSION Both approaches rely on SDOH event representations that were designed to be compatible with transformer-based pretrained models, with the seq2seq representation supporting an arbitrary number of overlapping and sentence-spanning events. Models with adequate performance could be produced quickly, and the remaining mismatch between representation and task requirements was then addressed in postprocessing. The classification approach used rules to generate entity relationships from its sequence of token labels, while the seq2seq approach used constrained decoding and a constraint solver to recover entity text spans from its sequence of potentially ambiguous tokens. CONCLUSION We proposed 2 different approaches to extract SDOH from clinical texts with high accuracy. However, accuracy suffers on text from new healthcare institutions not present in the training data, and thus generalization remains an important topic for future study.
Effects of individual and organizational factors on job tenure of primary care physicians: A multilevel analysis from Brazil

Background The short tenure of primary care physicians undermines the continuity of care, compromising health outcomes in low-, middle and in high-income countries. The purpose of this study was to investigate the contextual and individual factors associated with the tenure of physician in Primary Health Care (PHC) services. We consider individual-level sociodemographic variables such as education and work-related variables, as well as the characteristics of employers and services. Methods This study is a retrospective cohort study of 2,335 physicians in 284 Primary Health Care Units across the São Paulo, Brazil, public health care system from 2016 to 2020. A multivariate hierarchical model was selected, and an adjusted Cox regression with multilevel analysis was employed. The Strengthening the Reporting of Observational Studies in Epidemiology (STROBE) checklist was used to report the findings from the study. Results The average physician tenure was 14.54 ± 12.89 months, and the median was 10.94 months. Differences between Primary Health Care Units accounted for 10.83% of the variance observed in the outcome, while the employing organizations were responsible for only 2.30%. The physician characteristics associated with higher tenure in PHC were age at hire, i.e., being between 30 and 60 years old, [HR: 0.84, 95% CI: (0.75–0.95)] and professional experience over five years [HR: 0.76, 95% CI: (0.59–0.96)]. Specialties not related to PHC practices were associated with a short tenure [HR: 1.25, 95% CI: (1.02–1.54)]. Conclusion Differences between Primary Health Care Units and in the individual characteristics, such as specializations and experience, are related to the low tenure of professionals, but such characteristics can be changed through investments in PHC infrastructure and changes in work conditions, policies, training, and human resource policies. Finding a remedy for the short tenure of physicians is essential for guaranteeing a robust PHC system that can contribute to universal, resilient, and proactive health care.
Roles of the leader-trailer helix and antitermination complex in biogenesis of the 30S ribosomal subunit

Abstract Ribosome biogenesis occurs co-transcriptionally and entails rRNA folding, ribosomal protein binding, rRNA processing, and rRNA modification. In most bacteria, the 16S, 23S and 5S rRNAs are co-transcribed, often with one or more tRNAs. Transcription involves a modified RNA polymerase, called the antitermination complex, which forms in response to cis-acting elements (boxB, boxA and boxC) in the nascent pre-rRNA. Sequences flanking the rRNAs are complementary and form long helices known as leader-trailer helices. Here, we employed an orthogonal translation system to interrogate the functional roles of these RNA elements in 30S subunit biogenesis in Escherichia coli. Mutations that disrupt the leader-trailer helix caused complete loss of translation activity, indicating that this helix is absolutely essential for active subunit formation in the cell. Mutations of boxA also reduced translation activity, but by only 2- to 3-fold, suggesting a smaller role for the antitermination complex. Similarly modest drops in activity were seen upon deletion of either or both of two leader helices, termed here hA and hB. Interestingly, subunits formed in the absence of these leader features exhibited defects in translational fidelity. These data suggest that the antitermination complex and precursor RNA elements help to ensure quality control during ribosome biogenesis.
Collective radiation spectrum for ensembles with Zeeman splitting in single-photon superradiance

In an ensemble of identical atoms, cooperative effects like sub- or superradiance may alter the decay rates and the energy of specific transitions may be shifted from the single-atom value by the so-called collective Lamb shift. While such effects in ensembles of two-level systems are by now well understood, realistic multi-level systems are more difficult to handle. In this work we show that in a system of atoms or nuclei under the action of an external magnetic field, the collective contribution to the level shifts can amount to seizable deviations from the single-atom Zeeman or magnetic hyperfine splitting picture. We develop a formalism to describe single-photon superradiance in multi-level systems in the small sample limit and quantify the parameter regime for which the collective Lamb shift leads to measurable deviations in the magnetic-field-induced splitting. In particular, we show that this effect should be observable in the nuclear magnetic hyperfine splitting in M\"ossbauer nuclei embedded in thin-film x-ray cavities.
Velocity field and cavity dynamics in drop impact experiments

Abstract Drop impact experiments allow the modelling of a wide variety of natural processes, from raindrop impacts to planetary impact craters. In particular, interpreting the consequences of planetary impacts requires an accurate description of the flow associated with the cratering process. In our experiments, we release a liquid drop above a deep liquid pool to investigate simultaneously the dynamics of the cavity and the velocity field produced around the air–liquid interface. Using particle image velocimetry, we analyse quantitatively the velocity field using a shifted Legendre polynomial decomposition. We show that the velocity field is more complex than considered in previous models, in relation to the non-hemispherical shape of the crater. In particular, the velocity field is dominated by degrees 0 and 1, with contributions from degree 2, and is independent of the Froude and the Weber numbers when these numbers are large enough. We then derive a semi-analytical model based on the Legendre polynomial expansion of an unsteady Bernoulli equation coupled with a kinematic boundary condition at the crater boundary. This model explains the experimental observations and can predict the time evolution of both the velocity field and the shape of the crater, including the initiation of the central jet.
COVID times make ‘deep listening’ explicit: changing the space between interviewer and participant

This article draws on the research project Post-abortion narratives shared by Perth women via face-to-face interviews. The project was subsequently disrupted by the arrival of COVID-19 in Perth, Australia, making it necessary to conduct interviews via video call. The experience of using an online platform to conduct interviews became an opportunity to consider more carefully the practice of ‘deep listening’. This kind of listening involves creating an emotional connection with the participant so that the interviewer is able to hear multiple layers of meaning and context. It includes listening mixed with perception in which one can hear the emotions of the other. In a paradigm where the interview is seen as an interaction between two embodied individuals and the interviewer herself is the instrument of research, this article examines the communication that occurs in the space between two co-present, embodied individuals and explicates the practice of deep listening. While interviewing via video call is an excellent tool, I argue that a layer of meaning is removed by the technological medium, which impacts the researcher relationship and thus the ability to listen deeply.
Robust and simple non-reflecting boundary conditions for the space-time conservation element and solution element method

This paper reports on a significant advance in the area of non-reflecting boundary conditions for unsteady flow computations. Sets of new non-reflecting boundary conditions for ID Euler problems are developed without using any characteristics-based techniques. These conditions are much simpler than those commonly reported in the CFD literature, yet so robust that they are applicable to subsonic, transonic and supersonic flows even in the presence of discontinuities. The paper details the theoretical underpinning of the boundary conditions, and explains their unique robustness and accuracy, in terms of the conservation of space-time fluxes. Some numerical results for an extended Sod's shock-tube problem, illustrating the effectiveness of the boundary condi* Senior Research Scientist, e-mail: vvscc@noboo.lerc.nasa.gov ^Member, AIAA; e-mail: fshiman@trout.lerc.nasa.gov ^Member, AIAA; e-mail: fsloh@nasp03.lerc.nasa.gov § Member, AIAA, and Research Associate, e-mail: wangxy@rintintin.colorado. edu ^Member, AIAA, and Senior Engineer, e-mail: styu@lerc.nasa.gov II Member, AIAA, and Aerospace Engineer, e-mail: jorgenson@lerc.nasa.gov Copyright ©1997 American Institute of Aeronautics and Astronautics, Inc. No copyright is asserted in the United States under Title 17, U.S. Code. The U.S. Government has a royalty-free license to exercise all rights under the copyright claimed herein for Governmental Purposes. All other rights are reserved by the copyright owner. tions, are included, together with the simple Fortran computer program with which they were obtained. Since the properties of the numerical boundary conditions are closely linked to the previously developed interior schemes, a summary of the interior schemes is also provided.
Do firms actively manage media coverage when issuing convertible bonds? Evidence from China

ABSTRACT This article investigates whether, when and how firms actively manage media coverage when they plan to issue convertible bonds. Using a sample of listed firms that issued convertible bonds between 2010 and 2020 in China, we find that both firms’ media coverage and positive slant increase one month before issuances and active media management has a positive impact on conversion prices. Overall, our results support the active media management hypothesis and verify that firms actively manage media coverage prior to convertible bond issuances.