bluuebunny/crossref_metadata_2025_split huggingface dataset:
Is Respiratory Viral Infection an Inciting Event in the Development of Melioidosis? A Systematic Evaluation of Co-infection With Burkholderia pseudomallei and SARS-CoV-2 or Influenza
Authors: Martin Genevieve E , Chen Jerry L J , Woerle Celeste , Hinchcliff Alexandra , Baird Robert W , Davies Jane , Currie Bart J 
Published: December 2024

Abstract
Respiratory viral infection may increase infection with Burkholderia pseudomallei progressing to clinical disease (melioidosis). This data linkage study evaluated associations between melioidosis and SARS-CoV-2 or influenza. Among 160 melioidosis cases, there was no difference in risk factors, vaccine status, or disease severity between 17 with viral co-infection and 143 without.
Boosting transcriptional activities by employing repeated activation domains in transcription factors
Authors: He Chaochao , Liang Yue , Chen Runzhou , Shen Yuxiao , Li Runhui , Sun Tingting , Du Xing , Ni Xiaomei , Shang Junzhong , He Yanhong , Bao Manzhu , Luo Hong , Wang Jihua , Liao Pan , Kang Chunying , Yuan Yao-Wu , Ning Guogui 
Published: December 2024

Abstract
Enhancing the transcriptional activation activity of transcription factors (TFs) has multiple applications in organism improvement, metabolic engineering, and other aspects of plant science, but the approaches remain unclear. Here, we used gene activation assays and genetic transformation to investigate the transcriptional activities of two MYB TFs, PRODUCTION OF ANTHOCYANIN PIGMENT 1 (AtPAP1) from Arabidopsis (Arabidopsis thaliana) and EsMYBA1 from Epimedium (Epimedium sagittatum), and their synthetic variants in a range of plant species from several families. Using anthocyanin biosynthesis as a convenient readout, we discovered that homologous naturally occurring TFs showed differences in the transcriptional activation ability and that similar TFs induced large changes in the genetic program when heterologously expressed in different species. In some cases, shuffling the DNA-binding domains and transcriptional activation domains (ADs) between homologous TFs led to synthetic TFs that had stronger activation potency than the original TFs. More importantly, synthetic TFs derived from MYB, NAC, bHLH, and ethylene-insensitive3-like (EIL) family members containing tandemly repeated ADs had greatly enhanced activity compared to their natural counterparts. These findings enhance our understanding of TF activity and demonstrate that employing tandemly repeated ADs from natural TFs is a simple and widely applicable strategy to enhance the activation potency of synthetic TFs.
Disagreement on foundational principles of biological aging
Authors: Gladyshev Vadim N , Anderson Benjamin , Barlit Hanna , Barré Benjamin , Beck Samuel , Behrouz Bahareh , Belsky Daniel W , Chaix Amandine , Chamoli Manish , Chen Brian H , Cheng Kaiyang , Chuprin Jane , Churchill Gary A , Cipriano Andrea , Colville Alex , Deelen Joris , Deigin Yuri , Edmonds KeHuan K , English Bradley W , Fang Ruogu , Florea Michael , Gershteyn Iosif M , Gill Diljeet , Goetz Laura H , Gorbunova Vera , Griffin Patrick T , Horvath Steve , Borch Jensen Martin , Jin Xin , Jovanovska Sara , Kajderowicz Kathrin M , Kasahara Tomoko , Kerepesi Csaba , Kulkarni Subhash , Labunskyy Vyacheslav M , Levine Morgan E , Libert Sergiy , Lu J Yuyang , Lu Yuancheng Ryan , Marioni Riccardo E , McCoy Brianah M , Mitchell Wayne , Moqri Mahdi , Nasirian Farzaneh , Niimi Peter , Oh Hamilton Se-Hwee , Okundaye Brian , Parkhitko Andrey A , Peshkin Leonid , Petljak Mia , Poganik Jesse R , Pridham Glen , Promislow Daniel E L , Prusisz Weronika , Quiniou Margaux , Raj Ken , Richard Daniel , Ricon Jose Luis , Rutledge Jarod , Scheibye-Knudsen Morten , Schork Nicholas J , Seluanov Andrei , Shadpour Michael , Shindyapina Anastasia V , Shuken Steven R , Sivakumar Sruthi , Stoeger Thomas , Sugiura Ayumu , Sutton Nadia R , Suvorov Alexander , Tarkhov Andrei E , Teeling Emma C , Trapp Alexandre , Tyshkovskiy Alexander , Unfried Maximilian , Ward-Caviness Cavin K , Yim Sun Hee , Ying Kejun , Yunes Jeffrey , Zhang Bohan , Zhavoronkov Alex 
Published: December 2024

Abstract
To gain insight into how researchers of aging perceive the process they study, we conducted a survey among experts in the field. While highlighting some common features of aging, the survey exposed broad disagreement on the foundational issues. What is aging? What causes it? When does it begin? What constitutes rejuvenation? Not only was there no consensus on these and other core questions, but none of the questions received a majority opinion—even regarding the need for consensus itself. Despite many researchers believing they understand aging, their understanding diverges considerably. Importantly, as different processes are labeled as “aging” by researchers, different experimental approaches are prioritized. The survey shed light on the need to better define which aging processes this field should target and what its goals are. It also allowed us to categorize contemporary views on aging and rejuvenation, revealing critical, yet largely unanswered, questions that appear disconnected from the current research focus. Finally, we discuss ways to address the disagreement, which we hope will ultimately aid progress in the field.
Regularization of Matrices in the Covariant Derivative Interpretation of Matrix Models
Authors: Hattori Keiichiro , Mizuno Yuki , Tsuchiya Asato 
Published: December 2024

Abstract
We study regularization of matrices in the covariant derivative interpretation of matrix models, a typical example of which is the type IIB matrix model. The covariant derivative interpretation provides a possible way in which curved spacetimes are described by matrices, which are viewed as differential operators. One needs to regularize the operators as matrices of finite size in order to apply the interpretation to nonperturbative calculations such as numerical simulations. We develop a regularization of the covariant derivatives in two dimensions by using the Berezin–Toeplitz quantization. As examples, we examine the cases of $S^2$ and $T^2$ in detail.
FeMOFs/CO loading reduces NETosis and macrophage inflammatory response in PLA based cardiovascular stent materials
Authors: Xie Yinhong , Chi Mengchen , Yang Xinlei , Dong Ruichen , Yang Ao , Yin Antao , Weng Yajun 
Published: December 2024

Abstract
Modification of polylactic acid (PLA) is a promising strategy for the next generation of bioresorbable vascular stent biomaterials. With this focus, FeMOFs nanoparticles was incorporated in PLA, and then post loading of carbon monoxide (CO) was performed by pressurization. It showed FeMOFs incorporation increased hydrophilicity of the surface and CO loading, and CO release was sustained at least for 3 days. It is well acknowledged NETosis and macrophage mediated inflammation are the principal effectors of atherosclerosis and cardiovascular disease, and it further increases the risk of late stent thrombosis and restenosis. In this study, the effects of CO release of PLA/FeMOFs/CO on NETosis and macrophage behavior were thoroughly explored. In vitro evaluation results showed that PLA/FeMOFs/CO significantly inhibited neutrophil extracellular traps (NETs) release and neutrophil elastase expression by reducing intracellular reactive oxygen species in a simulated inflammatory environment. It reduced Lipopolysaccharide-induced macrophage inflammation with decreased tumor necrosis factor-α expression and increased IL-10 expression. Meanwhile it enhanced endothelial cell activity and growth in inflammatory environment, and inhibited platelet adhesion and activation. In vivo implantation results confirmed that PLA/FeMOFs/CO reduced the macrophages and neutrophils mediated inflammatory response, thus reduced the neointimal hyperplasia. Overall, PLA/FeMOFs/CO effectively prevented the inflammation and restenosis associated with PLA implantation. Our study provides a new strategy to improve the immunocompatibility of PLA implant materials.
The Next Chapter of Big Data in Finance
Authors: Goldstein Itay , Spatt Chester S , Ye Mao 
Published: December 2024

Abstract
The second special issue on big data in finance showcases advancements in research related to data of large size, high dimension, and complex structure since the first NBER/RFS big data conference. The papers published in this next chapter address some questions that were proposed in the initial special issue in 2021. Other papers are more directly connected to recent developments in the markets. We discuss some new research directions, following on the papers published here. They include evaluating market microstructure reforms, understanding medium-frequency trading, improving missing data imputations, and deepening data valuation. We look forward to more developments to follow.
Longitudinal trajectories of the Scleroderma Health Assessment Questionnaire (SHAQ) visual analogue scales: a retrospective cohort study
Authors: Hughes Michael , Sylvestre Yvonne , Manning Joanne , Wragg Elizabeth , Mandzuk Melissa , Samaranayaka Muditha , Dinsdale Graham , Vail Andy , Herrick Ariane L 
Published: December 2024

Abstract

Objective
SSc is disabling. However, the different factors contributing to this disability and how these change over time have been little studied. Our aim was to examine the trajectories over time of the six visual analogue scales (VAS) of the Scleroderma HAQ (SHAQ), associations of disease-related factors with these trajectories, and relationships with overall functional ability.

Methods
This was a retrospective study of data collected prospectively from patients attending a single tertiary centre between 2005 and 2022. VAS (pain, intestinal, breathing, RP, digital ulcers, ‘overall’) were analysed using linear mixed-effects models, and relationships between the six VAS and functional ability [HAQ Disability Index (HAQ-DI)] and scleroderma functional index (FI) by correlating the average gradients obtained from individual linear regressions.

Results
A total of 537 patients with at least two time-points were included, followed for a mean (s.d.) of 6.8 (4.2) years. VAS intestinal scores increased (i.e. worsened) by 0.085 points (95% CI 0.041–0.130, P &lt; 0.001) per year, VAS breathing by 0.056 points (95% CI 0.016–0.096, P = 0.006) and VAS overall scores by 0.073 points (95% CI 0.032–0.114, P = 0.001). The longer the duration between RP onset and SSc diagnosis, the lower the VAS pain and VAS intestinal scores. The odds of having at least one digital ulcer reduced with disease duration, with diffuse cutaneous subtype and with anti-Scl70 positivity. Average gradients for all six VAS scales correlated (albeit variably/weakly) with HAQ-DI and scleroderma FI gradients.

Conclusion
Longitudinal assessment of the six SHAQ VAS, and associations of baseline characteristics with the individual VAS time courses, provide insights into disease trajectory and overall disability.
Catch-up of CoPs in GIS and IVC: evidence from Chinese CNC machine tools
Authors: Liu Wenlan , Guo Dong , Rogers Juan 
Published: December 2024

Abstract
In the era of innovation globalization, realizing technology catch-up poses a challenge to late-coming countries. This paper integrates the conceptual framework of the global innovation system (GIS) and the model of the innovation value chain (IVC) and takes the high-grade computer-numerical-control(CNC) machine tools’ catch-up in China as a case study to analyze the characteristics and mechanisms for the catch-up of complex product systems (CoPs) in different globalization historical stages from the perspective of research and development (R&D), transformation, and commercialization. We find that strengthening the GIS–IVC-based resource integration of innovation for R&D, pilot and demonstration plants, and commercialization is the key factor in promoting the catch-up of CoPs in emerging economies, and effective guidance of innovation policies is essential for promoting the catch-up of CoPs in the global era.
Digital governance and AI: boosting OFDI’s impact on regional innovation performance
Authors: Wang Zhaoxing , Gao Yuchen , Zhou Yuan , Xue Lan 
Published: December 2024

Abstract
In the realm of global innovation, outward foreign direct investment (OFDI) serves as a pivotal channel for firms to integrate into international innovation networks. However, scant research has probed into the impact mechanisms of OFDI on firms’ innovation, particularly in the era of digitization and artificial intelligence (AI). In this study, we investigate OFDI’s effect on regional innovation performance by analysing a panel data of Chinese provinces. We find that OFDI significantly promotes the performance of regional innovation development. Moreover, we also identify two moderating factors, digital governance and AI, which significantly enhance the effect of OFDI on regional innovation performance.
“You just feel re-violated”: coercive sexual control in juvenile detention
Authors: Powell Amber Joy 
Published: December 2024

Abstract
Despite political calls on the state to “protect the children” from sexual violence, feminist scholars argue the state itself reproduces routine gender-based violence toward incarcerated communities, including youth. Building upon this work, I draw from twenty-three life history interviews with formerly incarcerated cis- and transgender men and women survivors to show how carceral norms facilitate a system of coercive sexual control. I define coercive sexual control as the policies, practices, and social relations that create the context for routine sexual violence and institutional harm toward youth. Coercive sexual control includes the sexual degradation of youth bodies, the underground economy of sexual favors, and the institutional denial of sexual harm. A theory of coercive sexual control shifts attention from sexual violence as solely interpersonal and episodic to the broader institutional mechanisms of power and social control that produce sexual exploitation against youth under the carceral state. Centering carceral institutions as sites of endemic sexual violence further unearths crucial discrepancies between institutional claims of prioritizing children’s sexual safety “on the books” and gaslighting youth claims of sexual misconduct in everyday practice.
Partial activation of salt-inducible kinase 3 delays the onset of wakefulness and alleviates hypersomnia due to the lack of protein kinase A-phosphorylation site
Authors: Nakata Shinya , Fujiyama Tomoyuki , Asano Fuyuki , Komiya Haruna , Hotta-Hirashima Noriko , Juichi Motoki , Komine Daiki , Kakizaki Miyo , Ikkyu Aya , Mizuno Seiya , Takahashi Satoru , Miyoshi Chika , Funato Hiromasa , Yanagisawa Masashi 
Published: December 2024

Abstract

Study Objectives
Sleep/wakefulness is regulated by intracellular signaling pathways composed of protein kinases such as salt-inducible kinase 3 (Sik3). Sik3-deficiency in neurons decreases nonrapid eye movement (NREM) sleep time and electroencephalogram (EEG) delta power during NREM sleep, while Sik3Slp mice lacking a protein kinase A (PKA)-phosphorylation site, S551, show hypersomnia phenotype. In this study, we examined how a phosphomimetic mutation of the 221st threonine residue (T221E), which provides a partial (weak) constitutive activity of the kinase, affects sleep/wakefulness and circadian behavior. We also examined the effect of T221E substitution on the hypersomnia phenotype of Sik3Slp mice.

Methods
We examined the sleep/wake behavior of heterozygous and homozygous Sik3T221E mice and Sik3T221E;Slp mice using EEG and electromyogram recording. We also examined the circadian behavior of Sik3T221E mice using a running wheel under the light–dark cycle and constant darkness.

Results
Heterozygous and homozygous Sik3T221E mice showed normal sleep time and sleep homeostatic responses. Homozygous Sik3T221E mice exhibited a delayed onset of wakefulness at the early dark phase and longer circadian periods. Sik3T221E;Slp mice showed decreased NREM sleep time and homeostatic responses compared to Sik3Slp mice.

Conclusions
Our results suggest that the peak onset of wakefulness is sensitive to disturbed kinase activity of SIK3, and the relationship between phosphorylation at T221 and S551 is critical for regulating sleep need.
The association between childhood maltreatment and multidimensional sleep health in adolescents at high risk of emotional and behavioral problems
Authors: Zarchev Milan , Kamperman Astrid M , Hoepel Sanne J W , Hoogendijk Witte J G , Mulder Cornelis L , Grootendorst-van Mil Nina H 
Published: December 2024

Abstract

Study Objectives
Impaired sleep following trauma such as childhood maltreatment is both a prognostic factor for future mental illness and a feasible intervention point. Yet, associations between childhood maltreatment and objectively measured sleep components are rarely found. New approaches advance the use of multidimensional sleep health scores instead of individual sleep components. However, no such methodology has been used to study the consequences of maltreatment on sleep health in adolescent cohorts so far. We hypothesized that childhood maltreatment will be associated with poorer sleep health in adolescence.

Methods
A cross-sectional sample of 494 adolescents at high risk of emotional and behavioral problems (mean age 17.9) completed the Childhood Trauma Questionnaire—Short Form to assess five forms of maltreatment (emotional and physical abuse/neglect and sexual abuse) assessed as continuous sum scores. During nine nights of actigraphy and sleep diary measurements, data on sleep regularity, satisfaction, alertness, timing, efficiency, and duration were collected, which were combined into a sleep health composite score ranging from 0 to 6. Linear regression models were adjusted for age, sex, household income, ethnic origin, educational level, urbanization of living environment, and parental psychopathological problems.

Results
Associations were found between all forms of maltreatment and poorer sleep health (p &lt; .031), except for sexual abuse (p = .224). Partial r effect sizes ranged from −0.12 (95% CI = −0.22 to −0.01) for emotional neglect to −0.18 (−0.28 to −0.08) for total maltreatment.

Conclusions
Maltreatment was associated with impairment in everyday sleep health, reflected in both subjective and objective measurements of sleep.
Insomnia symptoms are associated with return to use and non-fatal overdose following opioid use disorder treatment
Authors: Hochheimer Martin , Ellis Jennifer D , Strickland Justin C , Rabinowitz Jill A , Hobelmann J Gregory , Huhn Andrew S 
Published: December 2024

Abstract

Study Objectives
Opioid use disorder (OUD) is a chronic, relapse-prone condition, often accompanied by sleep disturbances such as insomnia. While sleep disturbances have been implicated in negative treatment outcomes, no large-scale studies have examined the relationship between insomnia disorder and outcomes for persons completing an acute OUD treatment episode. This study assessed the association between insomnia symptoms at treatment intake, during treatment, and following acute treatment with post-treatment episode return to use and non-fatal overdose outcomes.

Methods
This study analyzed data from 1905 individuals with OUD who received one of three forms of acute OUD treatment: supervised withdrawal, intensive outpatient, or residential treatment at 70 programs in the United States in 2021. Insomnia was assessed using the Insomnia Severity Index (ISI). Logistic regression and mixed regression analyses were performed to evaluate the association between insomnia and return to substance use or non-fatal overdose following a treatment episode.

Results
Higher ISI scores at intake were significantly associated with increased odds of return to use one-month post-treatment episode (p-value = .006). Reduction in ISI scores during treatment correlated with lower return-to-use rates (p-value = .015). Post-treatment episode, ISI scores indicative of insomnia were associated with return to use (p-values &lt; .001) and non-fatal overdose (p-values &lt; .004) at months one, three, and six.

Conclusions
These findings underscore the significant role of insomnia in return to opioid use following OUD treatment, highlighting the importance of addressing sleep disturbances early in OUD treatment. This study also suggests that maintaining sleep health during and after treatment could improve the long-term prognosis for OUD. Interventions targeting insomnia are a promising avenue to improve OUD treatment outcomes.
Systematic review: differences in complete blood count component rhythms
Authors: Busza Anna , Sharma Vani , Ferguson Kendall , Fawcett Andrea , Knoll Justin , Iwanaszko Marta , Zee Phyllis , Fishbein Anna 
Published: December 2024

Abstract

Study Objectives
The complete blood count (CBC) is one of the most commonly ordered blood tests with a large range of reference values that does not consider time of day for interpretation. Our objective was to systematically review this topic to report on peak and trough timing of CBC values.

Methods
A systematic search was performed for studies evaluating any component of the CBC with at least three collections over 24 hours. The studies were screened based on the predetermined eligibility criteria. Meta-analysis of aggregated data was analyzed with polynomial functions and forest plots.

Results
In total, 164 full-text articles were screened and 32 included in the final analysis with 548 total patients considering either leukocytes (n = 13), erythrocytes (n = 7), hemoglobin (n = 5), hematocrit (n = 5), platelets (n = 12), neutrophils (n = 11), lymphocytes (n = 13), monocytes (n = 8), eosinophils (n = 15), or basophils (n = 9). CBC components were analyzed by polynomial and forest plot analysis. Lymphocytes fitted best to a third-degree polynomial function (p = .010) with peak at 2264.87 cells/µL at 23:54 (CI: 1783.44 to 2746.31) with a trough of 1598.91 cells/µL at 10:47 (CI: 1230.12 to 1967.71). Lymphocytes and eosinophils peaked overnight, while erythrocytes, hemoglobin, and hematocrit peaked in the morning, and platelets, neutrophils, monocytes, and basophils peaked in late afternoon. Limitations include small sample size and significant study heterogeneity.

Conclusion
We identified a limited scope of studies characterizing CBC component rhythms. However, we still noted significant differences, particularly with lymphocytes. Future work should evaluate larger datasets to inform time-dependent interpretation of the CBC as we move toward precision medicine.