bluuebunny/crossref_metadata_2025_split huggingface dataset:
Effect of SNORD113-3/ADAR2 on glycolipid metabolism in glioblastoma via A-to-I editing of PHKA2
Authors: Cui Zheng , Liu Xiaobai , E Tiange , Lin Hongda , Wang Di , Liu Yunhui , Ruan Xuelei , Wang Ping , Liu Libo , Xue Yixue 
Published: January 2025

Abstract
Background
Glioblastoma multiforme (GBM) is a highly aggressive brain tumor, characterized by its poor prognosis. Glycolipid metabolism is strongly associated with GBM development and malignant behavior. However, the precise functions of snoRNAs and ADARs in glycolipid metabolism within GBM cells remain elusive. The objective of the present study is to delve into the underlying mechanisms through which snoRNAs and ADARs exert regulatory effects on glycolipid metabolism in GBM cells.

Methods
RNA immunoprecipitation and RNA pull-down experiments were conducted to verify the homodimerization of ADAR2 by SNORD113-3, and Sanger sequencing and Western blot experiments were used to detect the A-to-I RNA editing of PHKA2 mRNA by ADAR2. Furthermore, the phosphorylation of EBF1 was measured by in vitro kinase assay. Finally, in vivo studies using nude mice confirmed that SNORD113-3 and ADAR2 overexpression, along with PHKA2 knockdown, could suppress the formation of subcutaneous xenograft tumors and improve the outcome of tumor-bearing nude mice.

Results
We found that PHKA2 in GBM significantly promoted glycolipid metabolism, while SNORD113-3, ADAR2, and EBF1 significantly inhibited glycolipid metabolism. SNORD113-3 promotes ADAR2 protein expression by promoting ADAR2 homodimer formation. ADAR2 mediates the A-to-I RNA editing of PHKA2 mRNA. Mass spectrometry analysis and in vitro kinase testing revealed that PHKA2 phosphorylates EBF1 on Y256, reducing the stability and expression of EBF1. Furthermore, direct binding of EBF1 to PKM2 and ACLY promoters was observed, suggesting the inhibition of their expression by EBF1. These findings suggest the existence of a SNORD113-3/ADAR2/PHKA2/EBF1 pathway that collectively regulates the metabolism of glycolipid and the growth of GBM cells. Finally, in vivo studies using nude mice confirmed that knockdown of PHKA2, along with overexpression of SNORD113-3 and ADAR2, could obviously suppress GBM subcutaneous xenograft tumor formation and improve the outcome of those tumor-bearing nude mice.

Conclusions
Herein, we clarified the underlying mechanism involving the SNORD113-3/ADAR2/PHKA2/EBF1 pathway in the regulation of GBM cell growth and glycolipid metabolism. Our results provide a framework for the development of innovative therapeutic interventions to improve the prognosis of patients with GBM.
Airway MMP-12 and DNA methylation in COPD: an integrative approach
Authors: Eriksson Ström Jonas , Kebede Merid Simon , Linder Robert , Pourazar Jamshid , Lindberg Anne , Melén Erik , Behndig Annelie F. 
Published: January 2025

Abstract
Background
In COPD, the balance between matrix metalloproteinases (MMPs) and their natural inhibitors [tissue inhibitors of metalloproteinases (TIMPs)] is shifted towards excessive degradation, reflected in bronchoalveolar lavage (BAL) as increased MMP concentrations. Because of their critical role in lung homeostasis, MMP activity is tightly regulated, but to what extent this regulation occurs through epigenetic mechanisms remains unknown.

Methods
To explore the interplay between MMPs, TIMPs, and DNA methylation (DNAm) we (1) analysed MMP-9, -12, and TIMP-1 concentrations in BAL fluid, and profiled DNAm in BAL cells from 18 COPD and 30 control subjects, (2) estimated protein–COPD relationships using multivariable regression, (3) identified protein quantitative trait methylation loci (pQTMs) with COPD as a potential modifier in a separate interaction model, and (4) integrated significant interactions with a previous COPD GWAS meta-analysis.

Results
COPD was associated with higher levels of BAL MMP-12 (p = 0.016) but not with MMP-9 or TIMP-1. Further examination of MMP-12 identified association with DNAm at 34 loci (pQTMs), with TGFBR2 (p = 2.25 × 10–10) and THBS4 (p = 1.11 × 10–9) among the top ten pQTM genes. The interaction model identified 66 sites where the DNAm–MMP-12 association was significantly different in COPD compared to controls. Of these, one was colocalized with SNPs previously associated with COPD.

Conclusions
Our findings indicate that airway MMP-12 may partially be regulated by epigenetic mechanisms and that this regulation is disrupted in COPD. Furthermore, integration with COPD GWAS data suggests that this dysregulation is influenced by a combination of environmental factors, disease processes, and genetics, with the latter potentially playing a lesser role.
The adolescent experience of hereditary angioedema: a qualitative study of disease burden and treatment experience
Authors: Broderick Lynne , Foster April , Waldman Laura Tesler , Bordone Laura , Yarlas Aaron 
Published: January 2025

Abstract
Background
Hereditary angioedema (HAE) is a rare, autosomal dominant disorder causing swelling attacks in various parts of the body, resulting in impacts on health-related quality of life (HRQoL). The symptoms of HAE and its impacts on HRQoL have been well-documented in adults; however, relatively little is known about the experiences of adolescents with HAE. The objective of this study was to use qualitative interviews to investigate how adolescents experience HAE symptoms and how HAE impacts their HRQoL.

Methods
This was a non-interventional, qualitative study of adolescents with HAE. Participants were recruited via a patient advocacy organization and were eligible to take part in this study if they had a confirmed diagnosis of type I or type II HAE and were currently on prophylactic treatment to prevent HAE attacks. All participants completed a one-to-one, 60-minute, remote interview designed to elicit their experiences of HAE. Interview data were coded and analyzed using NVivo qualitative software.

Results
Twelve adolescents took part in this study. HAE attacks were described as painful and uncomfortable. Attacks varied by trigger, frequency, severity, location, and duration. Participants described ways in which HAE impacted their daily lives, including impacts on physical, social, emotional, and cognitive functioning, in addition to sleep disturbance, school-related impacts, and a need to avoid attack triggers. Impacts on emotional and social functioning were particularly noteworthy, as participants reported having to miss or skip social events, and sometimes withdrawing socially. Since initiating prophylaxis, participants reported the frequency, severity, and duration of attacks had been reduced and their HAE-related impacts had been minimized. Participants were satisfied with their current prophylactic and acute treatments, and expressed a preference for treatments that were effective, convenient, self-administered, and had minimal side effects.

Conclusion
Adolescents with HAE reported experiencing a range of symptoms that, when untreated, impacted their HRQoL in ways that are unique from adults. Further, participants reported that effective treatments (prophylactic and acute) inhibited symptoms and HRQoL impacts with minimal treatment burden. Findings from this study suggest that health care providers and clinical investigators should consider the unique HRQoL impacts experienced by adolescents when evaluating treatment benefit.
Loading of anionic surfactant on eco-friendly biochar and its applications in Cr(VI) removal: adsorption, kinetics, and reusability studies
Authors: Shaker Azza M. , Khedawy Mohamed , Moneer Abeer A. , El-Mallah Nabila M. , Ramadan Mohamed S. 
Published: January 2025

AbstractSurfactant-modified biochar is a viable adsorbent for eliminating Cr(VI) from synthetic wastewater. The biochar obtained from the zea mays plant (BC) was tailored with sodium dodecyl sulfate (SDS) as an anionic surfactant forming SDS-BC adsorbent. Different controlling conditions have been evaluated including pH of the solution, biomass concentration, primary Cr(VI) concentration, time of adsorption, and temperature. Under the best controlling circumstances, the percentage of removal has attained 99%. The pseudo-second-order kinetic model best described the removal process, according to the kinetic data, while the Temkin model, one of the applicable adsorption isotherm models, well expressed the adsorption process. The thermodynamic parameters were computed, which disclosed the spontaneity and exothermic character of the Cr(VI) elimination. According to the regeneration cycles, SDS-BC was cost-effective and had a good removal capability.
Graphical Abstract
Healthcare professionals’ understanding of children’s rights: a systematic review of the empirical evidence-base
Authors: Alshammari Sahar Mazied , Linden Mark A. , Kerr Helen , Noble Helen 
Published: January 2025

Abstract
Background
The concept of children’s rights emerged during the 1980s and emphasised the role of children as active participants in matters which concern them.

Aim
This review aims to identify and synthesise the empirical evidence base on healthcare professionals’ (HCPs) understanding of children’s rights.

Methods
Five electronic databases (PubMed, CINAHL, Embase, PsycINFO, and the Web of Science) were systematically searched in May 2023. The Mixed Methods Appraisal Tool (MMAT) was used to quality appraise full-text papers included in the review. A descriptive narrative synthesis of the studies’ findings was performed.

Results
A total of 15 relevant studies from 10 countries were identified and included in the review. The number of participants included ranged from 6 to 1048 for HCPs with a broad range of sampling methods. Based on the narrative synthesis of the included studies, three main themes were identified: (1) Barriers to implementing children’s rights in healthcare, (2) Factors that contribute to children’s rights implementation, and (3) Study instruments used to measure outcomes.

Conclusions
HCPs require a better understanding of children’s rights to implement these rights into practice. Listening to children, building trusting relationships with children, and continuing professional development of HCPs could help to address barriers to understanding children’s rights. There is a pressing need for the development of a tool that is capable of tracking changes in the understanding of children’s rights in healthcare environments as efforts to increase awareness become more widely recognised.
Designing inclusive tech playful educative solutions for visually impaired learners in STEM education
Authors: Castaneda Jennifer A. Cardenas , Lin Pei-Chun , Hung Patrick C. K. , Zhong Hua-Xu , Tseng Hao-An , Huang Yung-Fa , Ahmad Rafiq 
Published: January 2025

AbstractEducation in science, technology, engineering, and mathematics (STEM) is essential to achieving continued technological advancement. The most critical years for instilling knowledge are during childhood, and a strategic way to accomplish this is through playful materials. Therefore, there is a need to develop more inclusive solutions to achieve the good inclusion of visually impaired (VI) learners in this learning area. Despite their importance, specific design guidelines are scarce for developing playful, educational solutions for VI learners in STEM. Qualitative research was conducted through interviews and observations of the interactions between VI Learners playing an audio game and tactile 3D printed blocks, which covered an age range of young participants aged 8–18 years and adults aged 30–40 years in Taiwan. Surprisingly, the results showed that the combination of tangible and audio elements for playful purposes opens the way for students to show interest during educational interactions and, at the same time, allows them to understand the concept, especially when presented in different game missions but repeating the same principle/concept. In conclusion, there is a need for more inclusive strategies and approaches for playful STEM tools for VI learners, and one important aspect of achieving this is design guidelines. This study aims to understand the educational context of VI learners and their interactions when playing with educational materials to learn STEM concepts and develop design guidelines for the future development of playful STEM educational games.
Review on mushroom mycelium-based products and their production process: from upstream to downstream
Authors: Shin Hyun-Jae , Ro Hyeon-Su , Kawauchi Moriyuki , Honda Yoichi 
Published: January 2025

Abstract
The global trend toward carbon neutrality and sustainability calls for collaborative efforts in both the basic and applied research sectors to utilize mushroom mycelia as environmentally friendly and sustainable materials. Fungi, along with animals and plants, are one of the major eukaryotic life forms. They have long been utilized in traditional biotechnology sectors, such as food fermentation, antibiotic production, and industrial enzyme production. Some fungi have also been consumed as major food crops, such as the fruiting bodies of various mushrooms. Recently, new trends have emerged, shifting from traditional applications towards the innovative use of mushroom mycelium as eco-friendly bioresources. This approach has gained attention in the development of alternative meats, mycofabrication of biocomposites, and production of mycelial leather and fabrics. These applications aim to replace animal husbandry and recycle agricultural waste for use in construction and electrical materials. This paper reviews current research trends on industrial applications of mushroom mycelia, covering strain improvements and molecular breeding as well as mycelial products and the production processes. Key findings, practical considerations, and valorization are also discussed.

Graphical Abstract
The JAGUAR-DAS whole neutral atmosphere reanalysis: JAWARA
Authors: Koshin Dai , Sato Kaoru , Watanabe Shingo , Miyazaki Kazuyuki 
Published: January 2025

AbstractUsing the Japanese Atmospheric General circulation model for the Upper Atmosphere Research-Data Assimilation System (JAGUAR-DAS), a whole neutral atmosphere reanalysis dataset (JAWARA) over about 19 years from September 2004 to December 2023 is produced. JAWARA is the first long-period reanalysis covering the height region from the surface to the lower thermosphere (~ 110 km). This wide height coverage is a notable advantage over other operational reanalysis datasets, which cover up to the middle mesosphere. Key dynamical characteristics are compared between JAWARA and two satellite observations and three other operational reanalysis datasets in their covered height regions. The seasonal variations of zonal mean temperature and zonal wind are similar between JAWARA and the datasets used for comparison. The climatologies of zonal mean temperature, zonal wind, residual-mean circulation, and E-P flux in the meridional cross section are also broadly consistent with other reanalysis datasets. The analyzed residual-mean vertical flow in the northern high latitudes in the middle atmosphere exhibits the well-known patterns of upwelling in summer and downwelling in winter. JAWARA also shows a prominent feature of strong downward propagating anomalies from the lower thermosphere to the upper stratosphere after sudden stratospheric warmings. This analysis takes full advantage of the JAWARA data, which cannot be made using satellite observations and other reanalysis datasets. This reanalysis product is expected to contribute broadly to future research on the characteristics of observed mesospheric phenomena, thermosphere–ionosphere coupling, space weather, and improvement of middle atmospheric meteorological systems, including their interannual and decadal scale variability.
Optical properties of unoxidized and oxidized titanium nitride thin films
Authors: Odusanya Abiodun A. , Schall J. David , Pfeifer Mark A. , Wright John , Martin Catalin , Craciun Valentin , Kumar Dhananjay 
Published: January 2025

AbstractThis study reports a pulsed laser deposition-assisted synthesis of highly metallic titanium nitride (TiN) and a series of semiconducting titanium oxynitride (TiNxOy) compounds in thin film form with tunable plasmonic properties by carefully altering the nitrogen (N)-oxygen (O) ratio. The N/O ratio was controlled from 0.3 (highest oxygen doping of TiN) to ~ 1.0 (no oxygen doping of TiN) by growing the TiN films under nitrogen pressures of 50, 35, and 10 mTorr and high vacuum conditions of 2 × 10−6 Torr with no external gas introduced. The presence of nitrogen in the deposition chamber during the film growth affects the gas phase oxidation of TiN to TiNxOy by increasing the mean free path-dependent N and O inter-collisions per second by two to three orders of magnitudes. The evidence of increased oxidation of TiN to TiNxOy with an increase in nitrogen deposition pressure was obtained using X-ray photoelectron spectroscopy analysis. While the TiN samples deposited in high vacuum conditions had the highest reflectance, TiNxOy thin films were also found to possess high reflectance at low frequency with a well-defined edge around 20,000 cm−1. Furthermore, the vacuum-deposited TiN samples showed a large negative dielectric constant of -330 and the largest frequency of zero-crossing at 25,000 cm−1; the TiNxOy samples deposited in the presence of nitrogen ambient also showed promising plasmonic applications at the near-mid infrared range. A comparison of the dielectric constant and loss function data of this research with the literature values for noble metals seems to indicate that TiN and TiNxOy have the potential to replace gold and silver in the visible and near-infrared spectral regions.
Theoretical exploration of structural, electronic, elastic, mechanical, and thermodynamic properties of MgCu4Sn intermetallic compound for engineering applications: first-principle calculations
Authors: Boucetta S. , Benbahouche Ly. 
Published: January 2025

AbstractThe structural, electronic, elastic, mechanical, and thermodynamic properties of the ternary MgCu4Sn intermetallic compound are investigated by means of first-principle calculations within density functional theory (DFT), in combination with the quasi-harmonic Debye model. Local density approximation (LDA) and generalized gradient approximation (GGA) are made for electronic exchange–correlation potential energy. The lattice constant is in good agreement with experimental data. We determine the elastic constant tensor of the compound from the calculated stress–strain relation in both approximations. Once the elastic constants are obtained, the bulk modulus B, shear modulus G, Young’s modulus E, Poisson’s ratio ν, anisotropy factor A, and the ratio B/G for MgCu4Sn compound were deduced using Voigt-Reuss-Hill (VRH) approximation. The ground-state structure of MgCu4Sn is predicted to be thermodynamically and mechanically stable. The obtained band structure and density of states reveal metallic character of MgCu4Sn. The calculation results show also that this intermetallic crystal is a stiff, elastically anisotropic and ductile material. The Debye temperature is also determined from elastic constants. The temperature dependence of the constant volume heat capacity Cv, the entropy S, and the volumetric thermal expansion coefficient α in a quasi-harmonic approximation have been obtained from calculated energy E as a function of the volume V of a MgCu4Sn crystal and discussed for the first report.
Electrocardiographic markers predict hemodynamic parameters in adults with uncorrected secundum atrial septal defect
Authors: Umamy Kunti N. , Martiana Astri K. , Myrtha Risalina , Irnizarifka Irnizarifka , Nursidiq Alfa A. 
Published: January 2025

Abstract
Background
Precapillary pulmonary hypertension (PH) as complication in atrial septal defect (ASD) is closely related to right heart hemodynamics, such as right atrial pressure (RAP) and pulmonary vascular resistance (PVR). Right heart catheterization (RHC) as the gold standard for their measurement is invasive and not widely available in Indonesia. Electrocardiography (ECG) was proposed to be alternative in this matter.

Method
This is a retrospective observational study with cross-sectional design. We collected data and measured ECG parameters of secundum ASD patients who underwent elective RHC from May 2019 until November 2023. We compared several ECG parameters based on RAP (< 8 and ≥ 8 mmHg) and PVR (< 5 and ≥ 5 WU).

Result
Eighty-three patients were included. The RV1 was the only ECG marker that showed significant difference based on RAP (AUC 0.639, sensitivity 61.7%, specificity 61.1%, p = 0.030) and PVR (AUC 0.801, sensitivity 73.2%, specificity 81%, p < 0.001). Several ECG parameters were found significantly different based on PVR value only, namely SV5 (AUC 0.773, sensitivity 80.5%, specificity 71.4%, p < 0.001), SV6 (AUC 0.823, sensitivity 80.5%, specificity 81%, p < 0.001), right ventricular Sokolow–Lyon index (RVSLI) (AUC 0.841, sensitivity 82.9%, specificity 83.3%, p < 0.001), R/SV1 (sensitivity 97.6%, specificity 16.7%, p = 0.031) as well as right ventricular strain (sensitivity 87.8%, specificity 69%, p < 0.001). Multivariate regression analysis showed RVSLI (OR 15.66 (4.46–55.02), CI 95%) and right ventricular strain pattern (OR 9.23 (2.43–35.14), CI 95%) had the best predictive value for PVR ≥ 5 WU.

Conclusion
In adults with secundum ASD, several ECG markers have potential role in predicting PVR ≥ 5 WU with satisfying sensitivity and specificity, but not in predicting RAP.
Cancer vaccines: platforms and current progress
Authors: Lei Wanting , Zhou Kexun , Lei Ye , Li Qiu , Zhu Hong 
Published: January 2025

AbstractCancer vaccines, crucial in the immunotherapeutic landscape, are bifurcated into preventive and therapeutic types, both integral to combating oncogenesis. Preventive cancer vaccines, like those against HPV and HBV, reduce the incidence of virus-associated cancers, while therapeutic cancer vaccines aim to activate dendritic cells and cytotoxic T lymphocytes for durable anti-tumor immunity. Recent advancements in vaccine platforms, such as synthetic peptides, mRNA, DNA, cellular, and nano-vaccines, have enhanced antigen presentation and immune activation. Despite the US Food and Drug Administration approval for several vaccines, the full therapeutic potential remains unrealized due to challenges such as antigen selection, tumor-mediated immunosuppression, and optimization of delivery systems. This review provides a comprehensive analysis of the aims and implications of preventive and therapeutic cancer vaccine, the innovative discovery of neoantigens enhancing vaccine specificity, and the latest strides in vaccine delivery platforms. It also critically evaluates the role of adjuvants in enhancing immunogenicity and mitigating the immunosuppressive tumor microenvironment. The review further examines the synergistic potential of combining cancer vaccines with other therapies, such as chemotherapy, radiotherapy, and immune checkpoint inhibitors, to improve therapeutic outcomes. Overcoming barriers such as effective antigen identification, immunosuppressive microenvironments, and adverse effects is critical for advancing vaccine development. By addressing these challenges, cancer vaccines can offer significant improvements in patient outcomes and broaden the scope of personalized cancer immunotherapy.