bluuebunny/crossref_metadata_2025_split huggingface dataset:
CPADS: a web tool for comprehensive pancancer analysis of drug sensitivity
Authors: Li Kexin , Yang Hong , Lin Anqi , Xie Jiayi , Wang Haitao , Zhou Jianguo , Carr Shamus R , Liu Zaoqu , Li Xiaohua , Zhang Jian , Cheng Quan , Schrump David S , Luo Peng , Wei Ting 
Published: May 2024

Abstract
Drug therapy is vital in cancer treatment. Accurate analysis of drug sensitivity for specific cancers can guide healthcare professionals in prescribing drugs, leading to improved patient survival and quality of life. However, there is a lack of web-based tools that offer comprehensive visualization and analysis of pancancer drug sensitivity. We gathered cancer drug sensitivity data from publicly available databases (GEO, TCGA and GDSC) and developed a web tool called Comprehensive Pancancer Analysis of Drug Sensitivity (CPADS) using Shiny. CPADS currently includes transcriptomic data from over 29 000 samples, encompassing 44 types of cancer, 288 drugs and more than 9000 gene perturbations. It allows easy execution of various analyses related to cancer drug sensitivity. With its large sample size and diverse drug range, CPADS offers a range of analysis methods, such as differential gene expression, gene correlation, pathway analysis, drug analysis and gene perturbation analysis. Additionally, it provides several visualization approaches. CPADS significantly aids physicians and researchers in exploring primary and secondary drug resistance at both gene and pathway levels. The integration of drug resistance and gene perturbation data also presents novel perspectives for identifying pivotal genes influencing drug resistance. Access CPADS at https://smuonco.shinyapps.io/CPADS/ or https://robinl-lab.com/CPADS.
Cross-modal plasticity in children with cochlear implant: converging evidence from EEG and functional near-infrared spectroscopy
Authors: Deroche Mickael L D , Wolfe Jace , Neumann Sara , Manning Jacy , Hanna Lindsay , Towler Will , Wilson Caleb , Bien Alexander G , Miller Sharon , Schafer Erin , Gemignani Jessica , Alemi Razieh , Muthuraman Muthuraman , Koirala Nabin , Gracco Vincent L 
Published: May 2024

Abstract
Over the first years of life, the brain undergoes substantial organization in response to environmental stimulation. In a silent world, it may promote vision by (i) recruiting resources from the auditory cortex and (ii) making the visual cortex more efficient. It is unclear when such changes occur and how adaptive they are, questions that children with cochlear implants can help address. Here, we examined 7–18 years old children: 50 had cochlear implants, with delayed or age-appropriate language abilities, and 25 had typical hearing and language. High-density electroencephalography and functional near-infrared spectroscopy were used to evaluate cortical responses to a low-level visual task. Evidence for a ‘weaker visual cortex response’ and ‘less synchronized or less inhibitory activity of auditory association areas’ in the implanted children with language delays suggests that cross-modal reorganization can be maladaptive and does not necessarily strengthen the dominant visual sense.
Health Care Personnel Workdays Lost and Direct Health Care Salary Costs Incurred due to COVID-19 Infection in the Age of Widespread Vaccine Availability
Authors: Townsend Liam , Gillespie Paddy , McGrath Jonathan , Kenny Claire ,   PRECISE Study Steering Group, Doherty Lorraine , Domegan Lisa , Conlon Niall , Martin Greg , de Gascun Cillian , Gallagher Joan , Keogan Mary , Noonan Noirin , O’Farrelly Cliona , Byrne David , Bergin Colm , Fleming Catherine 
Published: May 2024

Abstract

Background
Vaccination against coronavirus disease 2019 (COVID-19) can mitigate the burden of health care worker (HCW) infection. We investigate the burden of HCW illness and its associated direct health care personnel costs in the setting of widespread vaccine availability and explore factors influencing these outcomes.

Methods
This multicenter prospective study followed HCWs over an 8-month period from January to August 2023. Data recorded included incident COVID-19 infection, symptom burden, workdays missed, and vaccine history. Workdays lost due to illness were used to calculate direct health care personnel costs due to COVID-19 infection. Univariate analysis and multivariable regression investigated the factors associated with workdays lost and direct health care personnel.

Results
In total, 1218 participants were enrolled and followed for 8 months, with 266 incidents of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection, 1191 workdays lost, and health care personnel costs of €397 974. Multivariable regression revealed that workdays lost were associated with incomplete primary COVID-19 vaccination course. Being unvaccinated, older age, and male were associated with increased health care personnel costs.

Conclusions
Health care workdays lost remain a significant issue and are associated with health care system burden despite vaccine availability. These can be mitigated via targeted implementation of vaccine programs. Seasonal variation in health care workdays lost should inform workforce planning to accommodate surge periods.
In COVID Times: Scholars of Health and Medicine Meet Disaster Studies
Authors: Knowles Scott Gabriel 
Published: May 2024

Abstract
This essay builds on the exciting trove of disaster social science research surfacing since the earliest days of the COVID-19 pandemic. It tracks the ways that both practitioners of medicine and public health, and their social science analogues, have approached the pandemic, explicitly considering the ways they reached for new concepts to explain the temporal phenomena presented by COVID-19 and its global course. The essay highlights a series of interviews conducted in the first two years of the pandemic as part of the COVIDCalls podcast. COVID is the moment for a scholarly convergence that was missed after September 11, and again after Hurricane Katrina, and should not be missed again. Accordingly, this essay explores themes where medicine/health studies and disaster studies seem to offer great help to one another in making sense of our COVID times: the origins of disaster, disasters in combination, and the end of a disaster.
Investigating the effects of species niche shifts on the potential distribution of Tuta absoluta (Lepidoptera: Gelechiidae) by using global occurrence data
Authors: Yuan Xuejiao , Zhang Yuanyuan , Hu Luyi , Sang Weiguo , Yang Zheng 
Published: May 2024

Abstract
Invasive species may occupy quite different environments in their invaded areas to native ones, which may intensively interfere with predicting potential distribution through ecological niche modeling (ENM). Here, we take the tomato leafminer Tuta absoluta Meyrick (Lepidoptera: Gelechiidae), a tomato pest, as an example to investigate this topic. We analyzed niche expansion, stability, unfilling, and Schoener’s D by principal component analysis (PCA) ordination method to examine its realized niche shifts and to explore how ENM approaches are affected by niche shifts. We used 5 datasets: Asian, African, European, South American, and global occurrence records in this study. Results showed that high niche unfilling for the species’ invaded areas in Asia (20%), Africa (12%), and Europe (37%), possibly due to T. absoluta being in the early stages of invasion. High niche expansion was observed in Asia (38%) and Europe (19%), implying that some European and Asian populations had reached new climatic areas. African niche had the most niche stability (94%) and was equivalent to the native one in climate space (PCA ordination method), but the n-dimensional climate space framework showed that they were different. When projecting the native model to Asia and Europe, the native model performed poorly, implying that the niche shifts affected the transferability of the native model. ENM based on global data outperformed than other models, and our results suggested that T. absoluta has a large potential distribution in Asia, Mexico, South Europe, the United States, and Australia. Meanwhile, we recommend updating ENMs based on the species’ invasion stage.
Phase separation of SPIN1 through its IDR facilitates histone methylation readout and tumorigenesis
Authors: Wang Yukun , Chen Yuhan , Li Mengyao , Wang Jiayue , Jiang Yuhan , Xie Rong , Zhang Yifeng , Li Zhihua , Yan Zhenzhen , Wu Chen 
Published: May 2024

Abstract
Spindlin1 (SPIN1) is a unique multivalent histone modification reader that plays a role in ribosomal RNA transcription, chromosome segregation, and tumorigenesis. However, the function of the extended N-terminal region of SPIN1 remains unclear. Here, we demonstrated that SPIN1 can form phase-separated and liquid-like condensates both in vitro and in vivo through its N-terminal intrinsically disordered region (IDR). The phase separation of SPIN1 recruits the histone methyltransferase MLL1 to the same condensates and enriches the H3K4 methylation marks. This process also facilitates the binding of SPIN1 to H3K4me3 and activates tumorigenesis-related genes. Moreover, SPIN1-IDR enhances the genome-wide chromatin binding of SPIN1 and facilitates its localization to genes associated with the MAPK signaling pathway. These findings provide new insights into the biological function of the IDR in regulating SPIN1 activity and reveal a previously unrecognized role of SPIN1-IDR in histone methylation readout. Our study uncovers the crucial role of appropriate biophysical properties of SPIN1 in facilitating gene expression and links phase separation to tumorigenesis, which provides a new perspective for understanding the function of SPIN1.
Bronchoalveolar Lavage and Oleic Acid Two-hit Model for Inducing Acute Respiratory Distress Syndrome in Swine Models
Authors: Russo Christopher , Evans Andrew , Sullivan Cameron , Wands Kayla , Hudson Arlene , Bedocs Peter 
Published: May 2024

ABSTRACT

Introduction
Acute respiratory distress syndrome (ARDS) is a widespread and often fatal clinical syndrome marked by the acute onset of pulmonary edema and inflammatory-mediated disruptions in alveolar-capillary permeability resulting in impaired gas exchange and tissue oxygenation with subsequent acute respiratory failure that accounts for 10.4% of all intensive care unit admissions worldwide and boasts a mortality rate of 38.5%. The current treatment for ARDS remains largely supportive. This is largely because of the many challenges of achieving a stable and sustainable animal model that recreates the pathophysiology of ARDS experimentally in a controlled setting to allow research to elucidate potential treatments of ARDS moving forward.

Materials and Methods
The bronchoalveolar lavage and oleic acid models are currently the 2 most frequently used experimental models in inducing ARDS in animal models. This study demonstrated that combining them into a “two-hit model” can produce sustained ARDS in swine models per the Horowitz index (PaO2/FiO2 ratio of ≤300 mmHg). Additionally, expected changes in pH, pCO2, lung compliance, cytokines, and tissue histopathology were observed and add to our confidence and reliability that the “two-hit model” produces symptomatic ARDS in a manner very similar to that observed in humans.

Results and Conclusions
In conclusion, we demonstrated a viable animal model of human ARDS that is maintained for a prolonged period, suitable for continuous monitoring of the progression, and evaluation of potential future treatments and procedures to reduce patient morbidity and mortality. To carry out this two-hit model, lung injury was induced through a combination of bronchoalveolar lavage and oleic acid administration and the disease process of ARDS is subsequently tracked through clinically relevant parameters such as respiratory mechanics, cytokine response, aretrial blood gas (ABG) changes, and observation of postmortem histopathologic changes. This promising new model has the capacity to successfully replicate human ARDS which is a well-known and notoriously multifactorial pathogenic process to reproduce experimentally for an extended period of time. The “two-hit model” is a viable and appropriate model for the research of novel treatments for ARDS.
The Successful Use of Bilateral 2-Level Ultrasound-Guided Stellate Ganglion Block to Improve Traumatic Brain Injury Symptoms: A Retrospective Analysis of 23 Patients
Authors: Mulvaney Sean W , Lynch James H , Rae Olmsted Kristine L , Mahadevan Sanjay , Dineen Kyle J 
Published: May 2024

ABSTRACT

Purpose
The purpose of the study was to determine whether performing ultrasound-guided, bilateral stellate ganglion blocks (SGBs; performed on subsequent days) improved traumatic brain injury (TBI) symptoms.

Methods
A retrospective chart review was conducted for the time period between August 2022 and February 2023 to identify patients who received bilateral, 2-level (C6 and C4) SGBs for PTSD symptoms but who also had a history of TBI. Neurobehavioral Symptoms Inventory (NSI) scores were collected at baseline, 1 week, and 1 month post-treatment in 14 males and 9 females.

Results
Out of 23 patients, 22 showed improvement in their NSI scores. NSI baseline average score was 42.7; the average score at 1 week post-treatment was 18.8; 1 month post-treatment was 20.1. This represents a 53% improvement in the NSI score between baseline and 1 month.

Conclusion
The use of bilateral, 2-level SGBs may be indicated in treating patients with PTSD symptoms with concomitant diagnoses of mild-to-moderate TBI.
Viability of Structured Gait Retraining for Improving Clinical Outcomes Following Running-related Injury in Active Duty Service Members
Authors: Leugers Kelly , Mathews Sara , Anderson Rhoda , Reilly Nicholas , Haltiwanger Henry , Gonnella Maria , Goss Don 
Published: May 2024

ABSTRACT

Introduction
All branches of the U.S. Military have a running component of their physical readiness testing battery. Running-related musculoskeletal injuries affect 20 to 40% of DoD Service Members each year. Running form has not historically been addressed with military running-related injuries. To assess the utility of a structured gait retaining protocol designed to treat the onset of running-related pain and/or injury by correcting identified biomechanical risk factors for injury and improve clinical outcomes.

Study Design
Case series.

Materials and Methods
A total of 160 Active Duty Service Members (ADSMs) with running-related lower-body musculoskeletal injuries were referred by a physical therapist for a multisession gait retraining program termed “Run with CLASS” (Cadence, Lean, Alignment, Soft-landing, Strike). Run with CLASS utilized various drills to emphasize impact progression, proximal strengthening, and proprioception and spatial awareness.

Results
Results revealed that the implemented gait retraining protocol significantly improved running parameters following lower-body injury as evidenced by increased cadence, improved functional assessment scores, and a marked transition from predominantly heel strike to forefoot strike patterns during running.

Conclusions
A 3-week supervised gait retraining program focused on the gait retraining program termed “Run with CLASS” (Cadence, Lean, Alignment, Soft-landing, Strike) was successful in altering biomechanics of self-selected running gait by increasing cadence and transitioning ADSMs to a forefoot foot strike. Additionally, ADSMs reported significant improvements on the self-reported functional scores on the University of Wisconsin Running Injury and Recovery Index and Single Assessment Numerical Evaluation.

Level of Evidence
4
Overview of Robotic Surgery in the U.S. Military: From Conception to Utilization, and Future Applications
Authors: Wahlstedt Eric R , Kronstedt Shane M , Saffati Gal , Hinojosa-Gonzalez David E , Mucher Zachary R 
Published: May 2024

Abstract
This column explores the inception, challenges, and prospects of robotic surgery in the military. It highlights the military’s role in developing early prototypes, current utilization, training struggles, partnerships with civilian organizations, and potential future applications. The military’s influence on the evolving landscape of robotic surgery is emphasized.
Incident Rate Limitations in Retrospective Observational Military Cancer Research
Authors: Sayers David R , DeStefano Christin B 
Published: May 2024

ABSTRACT
The unique jobs, exposures, and deployments in the military generate questions regarding cancer risks; however, incidence rates alone from retrospective observational studies provide limited information. Incorporating screening rates, staging, and mortality rates allows a more comprehensive perspective regarding cancer risk in the military.
Do No Harm in Global Health Engagement
Authors: Shinwari Sayed Alam , Currie Carolyn , Kumpf Joshua , Zuerlein Scott , Riley Kevin 
Published: May 2024

ABSTRACT
This manuscript examines the principle of “Do No Harm” in DoD Global Health Engagement (GHE) efforts. It highlights the potential positive and negative consequences of health investments and explores how unintentional harm is addressed in a global health context. The manuscript also discusses the involvement of the U.S. military in global health and the concept of dual loyalty faced by military GHE practitioners. The goal is to understand the challenges of doing no harm and identify methods to mitigate or avoid unintended negative consequences in DoD GHE activities.
Modelling the BAO feature in bispectrum
Authors: Behera Jayashree , Rezaie Mehdi , Samushia Lado , Ereza Julia 
Published: May 2024

ABSTRACT
We investigate how well a simple leading order perturbation theory model of the bispectrum can fit the baryon acoustic oscillation (BAO) feature in the measured bispectrum monopole of galaxies. Previous works showed that perturbative models of the galaxy bispectrum start failing at the wavenumbers of k ∼ 0.1 h Mpc−1. We show that when the BAO feature in the bispectrum is separated, it can be successfully modelled up to much higher wavenumbers. We validate our modelling on GLAM simulations that were run with and without the BAO feature in the initial conditions. We also quantify the amount of systematic error due to BAO template being offset from the true cosmology. We find that the systematic errors do not exceed 0.3 per cent for reasonable deviations of up to 3 per cent from the true value of the sound horizon.
Probing the role of self-gravity in clouds impacted by AGN-driven winds
Authors: Mandal Ankush , Mukherjee Dipanjan , Federrath Christoph , Bicknell Geoffrey V , Nesvadba Nicole P H , Mignone Andrea 
Published: May 2024

ABSTRACT
The impact of winds and jet-inflated bubbles driven by active galactic nuclei (AGN) are believed to significantly affect the host galaxy’s interstellar medium (ISM) and regulate star formation. To explore this scenario, we perform a suite of hydrodynamic simulations to model the interaction between turbulent star-forming clouds and highly pressurized AGN-driven outflows, focusing on the effects of self-gravity. Our results demonstrate that the cloudlets fragmented by the wind can become gravitationally bound, significantly increasing their survival time. While external pressurization leads to a global collapse of the clouds in cases of weaker winds ($10^{42}\!-\!10^{43}~{\rm erg\, s^{-1}}$), higher power winds ($10^{44}\!-\!10^{45}~{\rm erg\, s^{-1}}$) disperse the gas and cause localized collapse of the cloudlets. We also demonstrate that a kinetic energy-dominated wind is more efficient in accelerating and dispersing the gas than a thermal wind with the same power. The interaction can give rise to multiphase outflows with velocities ranging from a few 100 to several 1000 ${\rm km\, s^{-1}}$. The mass outflow rates are tightly correlated with the wind power, which we explain by an ablation-based mass-loss model. Moreover, the velocity dispersion and the virial parameter of the cloud material can increase by up to one order of magnitude through the effect of the wind. Even though the wind can suppress or quench star formation for about 1 Myr during the initial interaction, a substantial number of gravitationally bound dense cloudlets manage to shield themselves from the wind’s influence and subsequently undergo rapid gravitational collapse, leading to an enhanced star formation rate.
TRAPUM search for pulsars in supernova remnants and pulsar wind nebulae − I. Survey description and initial discoveries
Authors: Turner J D , Stappers B W , Carli E , Barr E D , Becker W , Behrend J , Breton R P , Buchner S , Burgay M , Champion D J , Chen W , Clark C J , Horn D M , Keane E F , Kramer M , Künkel L , Levin L , Men Y P , Padmanabh P V , Ridolfi A , Venkatraman Krishnan V 
Published: May 2024

ABSTRACT
We present the description and initial results of the TRAPUM (TRAnsients And PUlsars with MeerKAT) search for pulsars associated with supernova remnants (SNRs), pulsar wind nebulae, and unidentified TeV emission. The list of sources to be targeted includes a large number of well-known candidate pulsar locations but also new candidate SNRs identified using a range of criteria. Using the 64-dish MeerKAT radio telescope, we use an interferometric beamforming technique to tile the potential pulsar locations with coherent beams which we search for radio pulsations, above a signal-to-noise of 9, down to an average flux density upper limit of 30 μJy. This limit is target-dependent due to the contribution of the sky and nebula to the system temperature. Coherent beams are arranged to overlap at their 50 per cent power radius, so the sensitivity to pulsars is not degraded by more than this amount, though realistically averages around 65 per cent if every location in the beam is considered. We report the discovery of two new pulsars; PSR J1831−0941 is an adolescent pulsar likely to be the plerionic engine of the candidate PWN G20.0+0.0, and PSR J1818−1502 appears to be an old and faint pulsar that we serendipitously discovered near the centre of a SNR already hosting a compact central object. The survey holds importance for better understanding of neutron star birth rates and the energetics of young pulsars.
A case of osteogenesis imperfecta diagnosed after subchondral insufficiency fracture of bilateral femoral heads
Authors: Okada Nobuhiko , Watarai Keisuke , Ozawa Kota , Miyajima Tsuyoshi , Ohtake Akira , Kadono Yuho 
Published: May 2024

ABSTRACT
Osteogenesis imperfecta (OI) is a heterogeneous disorder characterised by bone fragility. Herein, we report a case of OI diagnosed after subchondral insufficiency fracture (SIF) of bilateral femoral heads. A 37-year-old woman was referred to Saitama Medical University Hospital due to left hip pain without any trauma that lasted for 2 months. She was subsequently diagnosed with SIF of the left femoral head. After 3 months, she further developed SIF of the right hip without any trauma. Magnetic resonance imaging of the bilateral hips showed linear low-signal changes of the subchondral bone and bone marrow oedema of the femoral head on T2-weighted coronal and sagittal images, diagnosing of both SIFs. The bone mineral density was 0.851 g/cm2 (T-score, −1.3) at the lumbar spine, 0.578 g/cm2 (T-score, −1.9) at the right femoral neck, and 0.582 g/cm2 (T-score, −1.9) at the left femoral neck. Considering that the patient had multiple histories of fracture, blue sclera, and mild bilateral sensorineural hearing loss, she satisfied the diagnostic criteria for OI. Genetic testing revealed a mutation in COL1A1 (NM_000088.3, c.3806G&gt;A: p. Trp1269*). After 7 months of conservative therapy, her symptoms improved. After 4 years, both hips were pain-free with no evidence of osteoarthritis progression. OI can result in insufficiency fractures due to bone fragility in adolescence and adulthood or later, and none of the cases of OI, except for the current case, were diagnosed as a result of bilateral SIF.