bluuebunny/crossref_metadata_2025_split huggingface dataset:
Trends in age and prostate-specific antigen at prostate cancer diagnosis between 2010 and 2019
Authors: Owens Lukas , Brahme Ojas , Gulati Roman , Etzioni Ruth 
Published: October 2024

Abstract
Recent studies have shown that de novo metastatic prostate cancer incidence in the United States increased from 2010 to 2019. Plausible explanations include delayed detection after recommendations against prostate cancer screening or upstaging associated with use of more sensitive imaging technologies. Using Surveillance, Epidemiology, and End Results patient cases and controlling for aging of the population, we found the median age and prostate-specific antigen (PSA) level at prostate cancer diagnosis increased by 1.4 years of age (95% CI = 1.3 to 1.5 years) and 1.4 ng/mL (95% CI = 1.4 to 1.5 ng/mL) over this period, consistent with the delayed detection hypothesis. Racial differences were noted, with 75th percentiles of PSA at diagnosis increasing by 4.3 ng/mL (95% CI = 3.7 to 4.8 ng/mL) over this time period for non-Hispanic Black men compared with 3.0 ng/mL (95% CI = 2.8 to 3.2 ng/mL) for non-Hispanic White men. Overall, patient characteristics at diagnosis suggest that delayed detection contributed at least in part to increases in de novo metastatic disease.
Animal neuropathic pain aroused by conglutinating oxidative regenerative cellulose on dorsal root ganglion
Authors: Kung Chia-Chi , Dai Shih-Ping , Yen Cheng-Han , Lee Yi-Jui , Chang Shih-Lun , Fang Yi-Ting , Lin Heng-Liang , Chen Chih-Li 
Published: October 2024

Abstract
Neuropathic pain arises as a consequence of injury or disease in the peripheral or central nervous system. Clinical cases have shown that spine postoperative chronic neuropathic pain remains a troublesome issue in medical treatment due to the presence of various degrees of peridural fibrosis and different inflammatory factors after spinal surgery. To address this issue, we developed a new neuropathic mice model that successfully simulates the real clinical situation by applying oxidative regenerative cellulose to L5 DRG (dorsal root ganglion). Behavior tests were done by von Fray and thermal stimuli. ELISA and real-time PCR were employed to detect the expression of genes involved in neuropathic pain. This model not only successfully induces chronic pain but also causes membrane thickening, non-neuronal cell recruitment, and a local increase of TNFα and interleukin-6. Additionally, this model did not cause neuron loss in the affected DRG, which mimics the characteristics of sticky tissue-induced neuropathic pain after clinic surgery. Based on this model, we administrated a TNF inhibitor to mice and successfully reduced mechanical allodynia after DRG surgery. In this study, the developed animal model may be a novel platform for delivering neuropathic pain treatments, such as target-based drug discovery or personalized diagnostic approaches.
New criteria to predict LATE-NC in the clinical setting: Probable/Possible LATE and LANS
Authors: Nelson Peter T 
Published: October 2024

Abstract
This review discusses terminology recently proposed for the classification of dementia and, more specifically, nosology related to aging-associated TDP-43 pathology: limbic-predominant age-related TDP-43 encephalopathy (LATE), and limbic-predominant amnestic neurodegenerative syndrome (LANS). While the “gold standard” for these clinical conditions is still LATE neuropathologic changes (LATE-NC), clinical criteria and biomarkers are evolving. The newly proposed clinical rubrics are discussed with emphasis on the need for terminology that acknowledges the distinctions between clinical syndrome-, molecular biomarker-, and pathologically defined disease concepts. As further progress is made on research into the specific biomarker-based detection and prediction of TDP-43 proteinopathy in the clinical setting, the definitions of “Probable” and “Possible” LATE are likely to become more useful clinically. For people interested in the pathological diagnoses or basic research related to LATE-NC, the relevant terminology remains unchanged by the newly proposed clinical criteria.
Supporting emotion regulation in children on the autism spectrum: co-developing a digital mental health application for school-based settings with community partners
Authors: Kaur Isha , Kamel Rima , Sultanik Evan , Tan Jessica , Mazefsky Carla A , Brookman-Frazee Lauren , McPartland James C , Goodwin Matthew S , Pennington Jeffrey , Beidas Rinad S , Mandell David S , Nuske Heather J 
Published: October 2024

Abstract

Objective
KeepCalm is a digital mental health application, co-designed with community partners, that incorporates wearable biosensing with support for teams to address challenging behaviors and emotion dysregulation in children on the autism spectrum.

Methods
We followed a user-centered design framework. Before app development, we conducted design workshops, needs assessment interviews, a systematic review, and created an Expert Advisory Board. Once we had a working prototype, we recruited 73 participants to test and help improve the app across five testing cycles.

Results
Participants rated the app across testing cycles as highly acceptable, appropriate, feasible, and with good usability. Qualitative data indicated that KeepCalm helped teachers (a) be aware of students’ previously unrealized triggers, especially for nonspeaking students; (b) prevent behavioral episodes; (c) communicate with parents about behaviors/strategies; and (d) equipped parents with knowledge of strategies to use at home. We learned that in order to make the app acceptable and appropriate we needed to make the app enjoyable/easy to use and to focus development on novel features that augment teachers’ skills (e.g., behavioral pattern and stress detection). We also learned about the importance of maximizing feasibility, through in-person app training/support especially regarding the wearable devices, and the importance of having aides involved.

Conclusion
Our findings have informed plans for wider-scale feasibility testing so that we may examine the determinants of implementation to inform adaptations and refinement, and gather preliminary efficacy data on KeepCalm’s impact on reducing challenging behaviors and supporting emotion regulation in students on the autism spectrum.
Achieving RoutIne Screening for Emotional health (ARISE) in pediatric subspecialty clinics
Authors: Al Zahidy Misk , Montori Victor , Gionfriddo Michael R , Mulholland Hannah , Particelli Britt , Olson Janelle , Campagna Allegra , Mateo Chavez Maria B , Montori Victor M , McCarthy Sarah R 
Published: October 2024

Abstract

Objective
This study aims to describe the experience of implementing a psychosocial distress screening system for children with serious or chronic medical conditions.

Methods
Achieving RoutIne Screening for Emotional health (ARISE) was developed to systematically evaluate psychosocial distress in children with serious medical or chronic medical illnesses, by integrating patient-reported outcome measures (PROM) into care delivery. ARISE was developed using a user-centered approach with extensive input from patients, families, and healthcare professionals to overcome barriers to routine PROM collection and integration into care as usual. It comprises a system to capture PROMs and then relay results to clinicians for changing care. We sought to implement ARISE at four subspecialty pediatric clinics caring for patients with cystic fibrosis, sickle cell disease, hemophilia, and neurological malignancy.

Results
Problems with acceptability, appropriateness, and feasibility represented barriers to implementation which were overcome by modifying the intervention using stakeholder input during the planning phase, leading to broad program acceptance. ARISE was implemented in three of the four clinics, in which 79.8% of eligible children and their family completed PROMs.

Conclusion
The ARISE program demonstrated the feasibility and effectiveness of integrating psychosocial screenings into subspecialty pediatric clinics, thereby enhancing the identification and management of psychosocial issues in children with serious and chronic medical illnesses.
Predicting 5G throughput with BAMMO, a boosted additive model for data with missing observations
Authors: Jacobson Tate , Ding Jie , Zou Hui 
Published: October 2024

Abstract
To deliver on the promise of 5G, network providers and application developers need to understand the factors impacting millimetre wave (mmWave) 5G throughput. Missing data, however, pose significant challenges for modelling throughput. Even in controlled settings, signal strength data may be only intermittently observed when a device’s connection is weak, leading to missing predictor values in model training. In addition, users may choose not to share their data once the model is deployed, meaning that key predictors may be missing when we want to predict throughput for their devices. To address these challenges, we introduce boosted additive model for data with missing observation (BAMMO), a novel additive model estimator obtained via a componentwise boosting algorithm that naturally incorporates data with missing values in model fitting. We validate BAMMO’s approach to handling missing data by comparing it with competing methods on real 5G network data with a high proportion of missing values and in simulations, finding that it delivers more accurate predictions and takes less time to compute. To identify key predictors of mmWave 5G throughput, we develop a novel extension of sparsity oriented importance learning for BAMMO, giving us a measure of variable importance based on the entire boosting solution path rather than a single selected model.
Strategic Aeromedical Evacuations of the French Armed Forces in French Guiana From 2018 to 2020
Authors: Arrivé Kévin , Hénard Jessica , Vial Valentin , Marbac Vanessa , Ilcinkas Carole , Astrié Pierre-Matthieu , Ensargueix Anne-Laure , Labrousse Thomas , André Nathalie , Bertho Kilian , Delon François 
Published: October 2024

ABSTRACT

Introduction
The French Armed Forces are deployed in French Guiana (FG) to protect national territory and ensure the security of strategically important sites. Military health support (MHS) provides medical support for missions in this tropical environment, which is hazardous and where confrontations are possible. MHS must organize tactical and strategic evacuations (Strat-AEs), so that an optimal level of care can be delivered. Overall, Strat-AE activity has been described previously but no specific data related to FG has been reported. The main objective of this study was to provide an overview of military Strat-AEs from FG.

Methods
We conducted a retrospective cohort study from January 01, 2018 through 31 December, 2020. All patients who required a military Strat-AE were included, and we collected sociodemographic characteristics, medical information, service-related injuries and illnesses, and the reason for and conditions of evacuation.

Results
We analyzed 210 patients and 199 were included. Most were noncommissioned members (63.3%) and belonged to the Army (75.4%) and the Gendarmerie (15.6%). Injury or illness was duty-related in 66.2% of patients. The main cause for evacuation was nonbattle injury (63.3%), followed by illness (27.1%). Battle stress and injury accounted for 9.5%. The main reasons for evacuation were surgical conditions (58.3%), particularly orthopedic (47.2%). Medical (22.1%), psychiatric (18.6%), and dental (1.0%) disorders followed. Most patients were categorized by the flight surgeon as P3 (98.5%), the lowest level of priority, and D4 (82.9%), the lowest level of dependency. The escort used during evacuation was identical to that recommended by the requester in 83.5% of cases. The final destination was mainly a hospital (89.9%). The time lag between injury or onset of illness and the request for evacuation was significantly longer when local health resources were insufficient.

Conclusion
The particularity of FG is a local health care system that provided initial care before the evacuation. To reduce the number of Strat-AEs in FG, the risk of nonbattle injury must be lessened and improvements must be made to the local health care system and to the partnership between civilian and military health services.
The Milky Way atlas for linear filaments – II. Clump rotation versus filament orientation
Authors: Xu Xuefang , Wang Ke , Gou Qian , Baug Tapas , Li Di , Duan Chunguo , Lei Juncheng 
Published: October 2024

ABSTRACT
Dense clumps distributed along filaments are the immediate medium for star formation. Kinematic properties of the clumps, such as velocity gradient and angular momentum, combined with filament orientation, provide important clues to the formation mechanism of filament-clump configurations and the role of filaments in star formation. By cross-matching the Milky Way atlas for linear filaments and the structure, excitation and dynamics of the inner Galactic interstellar medium (SEDIGISM) $^{13}$CO (2-1) data, we aim to derive the velocity gradient and its direction, the specific angular momentum ($J/M$), and the ratio ($\beta$) between the rotational energy and gravitational energy of clumps, as well as to investigate the alignment between clump rotation and filament orientation. We found a monotonic increase in $J/M$ as a function of clump size (R), following a power-law relation $J/M~\propto ~R^{1.5\pm 0.2}$. The ratio $\beta$ ranges from 1.1 $\times$ 10$^{-5}$ to 0.1, with a median value 1.0 $\times$ 10$^{-3}$, suggesting that clump rotation provides insignificant support against gravitational collapse. The distribution of the angle between clump rotation and natal filament orientation is random, indicating that the clumps’ rotational axes have no discernible correlation with the orientation of their hosting filaments. Counting only the most massive clump in each filament also finds no alignment between clump rotation and filament orientation.
Mass and spin measurements of black hole and neutron stars X-ray binaries through axisymmetric oscillation modes of thick torus
Authors: Trova Audrey 
Published: October 2024

ABSTRACT
This paper examines the oscillatory behaviour of relativistic, non-self-gravitating, charged-fluid toroidal structures within the context of the Kerr metric. The primary objective is to explore how thick accretion discs influence the mass and spin measurements of black holes and neutron stars in low-mass X-ray binaries (LMXBs) through quasi-periodic oscillations (QPOs) models. To achieve this, we conduct a local analysis within a general relativistic framework, determining the radial epicyclic and orbital frequencies in a perfect fluid disc. The tori are modelled using a non-Keplerian distribution of specific angular momentum, and we analyse how the oscillation properties depend on the model’s angular momentum distribution parameters. Subsequently, we connect these oscillatory frequencies to high-frequency QPOs observed in LMXBs, enabling us to calculate the optimal mass and spin values for each studied source.
Hubble Space Telescope observations of nearby type 1 quasars. I. Characterization of the extended [O iii] 5007 Å emission
Authors: Trindade Falcão Anna , Kraemer S B , Fischer T C , Schmitt H R , Feuillet L , Crenshaw D M , Revalski M , Maksym W P , Vestergaard M , Elvis M , Gaskell C M , Ho L C , Netzer H , Storchi-Bergmann T , Turner T J , Ward M J 
Published: October 2024

ABSTRACT
We use the Hubble Space Telescope to analyse the extended [O iii] 5007 Å emission in seven bright radio-quiet type 1 quasars (QSO1s), focusing on the morphology and physical conditions of their extended Narrow-Line Regions (NLRs). We find NLRs extending 3–9 kpc, with four quasars showing roughly symmetrical structures ($b/a$=1.2–1.5) and three displaying asymmetric NLRs ($b/a$=2.4–5.6). When included with type 1 and type 2 AGNs from previous studies, the sizes of the extended [O iii] regions scale with luminosity as $R_{\rm [O\,{\rm {\small III}}]}\sim L_{\rm [O\,{\rm {\small III}}]}^{0.5}$, consistent with photoionization. However, when analysed separately, type 1s exhibit a steeper slope ($\gamma _{1}$ = 0.57 $\pm$ 0.05) compared to type 2 AGNs ($\gamma _{2}$ = 0.48 $\pm$ 0.02). We use photoionization modelling to estimate the maximum NLRs sizes, assuming a minimum ionization parameter of log$(U)=-3$, an ionizing luminosity based on the $L_{\rm [O\,{\rm {\small III}}]}$-derived bolometric luminosity, and a minimum gas number density $n_{\rm H}\sim 100$ cm$^{-3}$, assuming that molecular clouds provide a reservoir for the ionized gas. The derived sizes agree well with direct measurements for a sample of type 2 quasars, but are underestimated for the current sample of QSO1s. A better agreement is obtained for the QSO1s using bolometric luminosities derived from the 5100 Å continuum luminosity. Radial mass profiles for the QSO1s show significant extended mass in all cases, but with less [O iii]-emitting gas near the central AGN compared to QSO2s. This may suggest that the QSO1s are in a later evolutionary stage than QSO2s, further past the blow-out stage.
The 2023 revised diagnostic criteria for IgG4-related dacryoadenitis and sialadenitis
Authors: Kanda Masatoshi , Nagahata Ken , Moriyama Masafumi , Takano Ken-ichi , Kamekura Ryuta , Yoshifuji Hajime , Tsuboi Hiroto , Yamamoto Motohisa , Umehara Hisanori , Umeda Masataka , Sakamoto Mizuki , Maehara Takashi , Inoue Yoshino , Kubo Satoshi , Himi Tetsuo , Origuchi Tomoki , Masaki Yasufumi , Mimori Tsuneyo , Dobashi Hiroaki , Tanaka Yoshiya , Nakamura Seiji , Takahashi Hiroki 
Published: October 2024

ABSTRACT

Objectives
For the diagnosis of immunoglobulin G4 (IgG4)-related dacryoadenitis and sialadenitis, either revised comprehensive diagnostic criteria or organ-specific diagnostic criteria for IgG4-related dacryoadenitis and sialadenitis in 2008 were applied; however, the collected knowledge for IgG4-related dacryoadenitis and sialadenitis required us to revise the criteria for IgG4-related dacryoadenitis and sialadenitis.

Methods
The board member of Japanese Study Group for IgG4-related Dacryoadenitis and Sialadenitis revised the diagnostic criteria for IgG4-related dacryoadenitis and sialadenitis. We collected the clinical questions to be revised and performed a review of the literature. When the data were insufficient, additional data collection was performed. After the revision, public comments were collected.

Results
The three major points were revised. (1) Asymmetric or under two pairs of dacryoadenitis and sialadenitis were included as IgG4-related dacryoadenitis and sialadenitis. (2) The thresholds of IgG4-positive cell infiltration were adjusted to an IgG4+/IgG+ ratio &gt;0.4 and IgG4+ cells &gt;10 per high power field. (3) The labial salivary gland biopsy was allowed to diagnose IgG4-related dacryoadenitis and sialadenitis.

Conclusions
The revised diagnostic criteria for IgG4-related dacryoadenitis and sialadenitis solved several issues with the previous criteria. It will improve the early diagnosis of IgG4-related dacryoadenitis and sialadenitis, especially in situations without enough resources for a biopsy.
Terminalia ivorensis demonstrates antioxidant properties and alters proliferation, genomic instability and migration of human colon cancer cells in vitro
Authors: Moomin Aliu , Knott Rachel M , Russell Wendy R , Moyer Mary P , Duthie Susan J 
Published: October 2024

Abstract
Colorectal cancer is a global killer that causes approximately 940 thousand deaths annually. Terminalia ivorensis (TI) is a tropical tree, the bark of which is used in African traditional medicine for the treatment of diabetes, malaria and ulcer. This study investigated TI as a potential anticancer agent in human colon cells in vitro. TI was extracted sequentially with petroleum ether, chloroform, ethyl acetate and ethanol. Antioxidant activity was assessed by DPPH and FRAP, and differential effects on cell viability, growth, DNA damage, DNA repair, and migration were measured in human colon cancer cells (CaCo-2) and/or non-cancerous human colonocytes (NCM460). The TI phytochemicals most strongly associated with these effects were identified by partial least-squares discriminant analysis. DPPH and FRAP activity were highest in TI ethyl acetate and ethanol extracts (p=0.001). All TI extracts significantly inhibited cell viability and growth and induced DNA damage and inhibited DNA repair in both cell models. The majority of TI extracts were significantly (p=0.01) more toxic to cancer cells than non-cancerous colonocytes. DNA repair was significantly (p=0.001) inhibited in CaCo-2 cells by ethyl acetate extract compared with NCM460 cells. Migration was also significantly inhibited (p&lt;0.001) in CaCo-2 by ethyl acetate (80%) and ethanol extracts (75%). Specific benzoic acids, flavonoids and phenols were identified to be strongly associated with these effects. TI displayed strong antioxidant activity and specific anticancer effects by inducing cell death and DNA damage, and by inhibiting DNA repair, cell proliferation and migration.
EnteroBase in 2025: exploring the genomic epidemiology of bacterial pathogens
Authors: Dyer Nigel P , Päuker Birgitta , Baxter Laura , Gupta Anshul , Bunk Boyke , Overmann Jörg , Diricks Margo , Dreyer Viola , Niemann Stefan , Holt Kathryn E , Rahman Mohammed , Brown Paul E , Stark Richard , Zhou Zhemin , Ott Sascha , Nübel Ulrich 
Published: October 2024

Abstract
This paper presents an update on the content, accessibility and analytical tools of the EnteroBase platform for web-based pathogen genome analysis. EnteroBase provides manually curated databases of genome sequence data and associated metadata from currently &gt;1.1 million bacterial isolates, more recently including Streptococcus spp. and Mycobacterium tuberculosis, in addition to Salmonella,Escherichia/Shigella,Clostridioides,Vibrio,Helicobacter,YersiniaandMoraxella. We have implemented the genome-based detection of antimicrobial resistance determinants and the new bubble plot graphical tool for visualizing bacterial genomic population structures, based on pre-computed hierarchical clusters. Access to data and analysis tools is provided through an enhanced graphical user interface and a new application programming interface (RESTful API). EnteroBase is now being developed and operated by an international consortium, to accelerate the development of the platform and ensure the longevity of the resources built. EnteroBase can be accessed at https://enterobase.warwick.ac.uk as well as https://enterobase.dsmz.de.
Towards the genomic sequence code of DNA fragility for machine learning
Authors: Pflughaupt Patrick , Abdullah Adib A , Masuda Kairi , Sahakyan Aleksandr B 
Published: October 2024

Abstract
Genomic DNA breakages and the subsequent insertion and deletion mutations are important contributors to genome instability and linked diseases. Unlike the research in point mutations, the relationship between DNA sequence context and the propensity for strand breaks remains elusive. Here, by analyzing the differences and commonalities across myriads of genomic breakage datasets, we extract the sequence-linked rules and patterns behind DNA fragility. We show the overall deconvolution of the sequence influence into short-, mid- and long-range effects, and the stressor-dependent differences in defining the range and compositional effects on DNA fragility. We summarize and release our feature compendium as a library that can be seamlessly incorporated into genomic machine learning procedures, where DNA fragility is of concern, and train a generalized DNA fragility model on cancer-associated breakages. Structural variants (SVs) tend to stabilize regions in which they emerge, with the effect most pronounced for pathogenic SVs. In contrast, the effects of chromothripsis are seen across regions less prone to breakages. We find that viral integration may bring genome fragility, particularly for cancer-associated viruses. Overall, this work offers novel insights into the genomic sequence basis of DNA fragility and presents a powerful machine learning resource to further enhance our understanding of genome (in)stability and evolution.