bluuebunny/crossref_metadata_2025_split huggingface dataset:
Establecimiento de necesidades en salud en las islas de Providencia y Santa Catalina, 16 meses después de la emergencia por el huracán Iota ocurrido en noviembre de 2020
Authors: Carreño Monica , Rojas Juan Camilo , Torres German , Caiman Alexandra , Morales Lady Catalina , Prieto Alvarado Franklyn Edwin , Berrio Pérez Olga Maritza , Sánchez León Edna Margarita , Llano Christian , Polo Gina , Borbón Ramos Milena Edith , Quijada Bonilla Hernán 
Published: January 2025

Introducción: el objetivo de este estudio fue establecer las necesidades en salud en la comunidad de Providencia y Santa Catalina a través de la descripción de las condiciones higiénico-sanitarias al momento del estudio y la ocurrencia de enfermedades de notificación obligatoria luego de 16 meses de ocurrido el huracán Iota.
Metodología: estudio transversal con metodología CASPER adaptada. Se realizó muestreo aleatorio estratificado espacial por sectores utilizando el sistema de información geográfica QGIS. Para la recolección de información se aplicó una encuesta adaptada en Epicollect5 y se revisó la notificación de enfermedades de interés en salud pública. Se realizaron análisis descriptivos, de correspondencia múltiple (ACM) y chi-cuadrado mediante Excel y R.
Resultados: de las 360 viviendas el 44,7 % requirieron reparación o reconstrucción total. La disponibilidad de servicios de acueducto, cilindros de gas y acceso a baterías sanitarias tuvieron disminuciones estadísticamente significativas (p <0,05). El 67,8 % utiliza agua de lluvia y en el 32,5 % no es tratada. El 57,5 % no realiza fumigación contra vectores, el 75 % dispone las excretas en pozo séptico, el 60,8 % reportó incremento de roedores y el 74,7 % aumento de vectores. El 17,2 % reportó esquema de vacunación COVID-19 incompleto. El 71,4% presenta antecedentes de enfermedades crónicas; el 9,9 % probable trastorno de ansiedad y el 7,2% de depresión. Se presentaron diez (10) brotes de enfermedades transmitidas por alimentos y dos (2) intentos de suicidio entre el desastre y la evaluación.
Conclusiones: los servicios de saneamiento se redujeron significativamente incluso 16 meses después del huracán; existen posibles factores de riesgo aledaños a las viviendas que favorecen la transmisión de enfermedades. Se encontró afectación en salud mental.
COVID-19 en establecimiento de sanidad militar naval, Bogotá D.C., semanas epidemiológicas 13 de 2020 a 49 de 2021
Authors: León Paola , Díaz Edwin , Baharona Monica 
Published: January 2025

Introducción: el primer caso de COVID-19 para la población de sanidad naval de Colombia fue reportado en la semana epidemiológica 13 de 2020, proveniente de una institución de sanidad militar de cuarto nivel.
Metodología: estudio descriptivo de brote, en el que se realizaron las actividades de gestión del riesgo. Se analizaron variables demográficas de los afectados, se estimó la tasa de ataque y la incidencia de los establecimientos de sanidad naval a nivel nacional y local. Se realizó curva epidémica. Los hallazgos se presentan en tablas y gráficos.
Resultados: la incidencia del brote en el establecimiento de sanidad militar en Bogotá D.C fue de 46 en 2020 y de 49 por 1 000 habitantes en 2021. Se evidenció mayor propagación del virus durante los picos de circulación y transmisión activa del SARSCoV-2 en el territorio nacional y en Bogotá D.C.
Conclusiones: la tasa de ataque (1,6 %) fue inferior a la reportada en el territorio nacional. Las fases desarrolladas en el marco de la gestión del riesgo en la pandemia de COVID-19 en la población de sanidad naval fueron preparación, contención y mitigación, estas permitieron optimizar la vigilancia y la respuesta al brote.
Spatiotemporal characteristics and determinants of urban expansion in China: perspective of urban agglomerations
Authors: Li Ming , Cao Yongwang , Song Jianxin , Li Huining , Liang Mengyin 
Published: January 2025

IntroductionUrban agglomerations (UAs) are core economic growth centres, and urban construction land is the main spatial carrier of economic growth. Urban expansion is a research hotspot, while previous studies have rarely compared the characters and determinants of urban expansion within and outside UAs.MethodsConsidering the case of China, based on the China Land Use/Cover Dataset (CLUD), this study use spatial statistics analysis and Theil index to compare the spatiotemporal characteristics of urban expansion within and outside UAs during 1990–2020. Economic models is used to detect difference of influencing factors of urban expansion within and outside UAs.ResultsAs for spatiotemporal characteristics, urban expansion is mainly distributed within UAs, especially in UAs at high and upper-middle development levels. In 1991–2020, urban expansion within the UAs accounted for 77.58% of the total urban expansion, and urban expansion in UAs at high and upper-middle development levels accounted for 71.58% of urban expansion in UAs. The inequality of urban expansion between within and outside UAs decreases with fluctuation. The rate of urban expansion outside UAs gradually exceeded that within the UAs from 2011. As for driving factors, government factors have a stronger power to urban expansion than economic factors. Economic factors were more influential within UAs than outside agglomerations. Meanwhile, government forces played more important roles outside urban agglomerations than within agglomerations. The impact of economic factors increased with an upgrade of UA development level, whereas government factors’ impact on urban expansion decreased with upgrade of UA development level.DiscussionThe findings provide a scientific support for urban construction land management. The impact of territorial and spatial planning on urban expansion will be studied.
Traceability simulation of drainage in irrigation areas along the south bank of the Yellow River based on the SWAT model
Authors: Hexiang Zheng , Yujing Han , Rongxuan Bao , Biyu Wang , Jiabin Wu , Delong Tian , Haofang Yan , Beibei Hao 
Published: January 2025

The simulation of drainage sources in irrigation areas at the watershed scale is of great significance for understanding the characteristics and drainage status of irrigation districts under various water-saving irrigation and climatic conditions. In this study, our focus was on the irrigation areas located on the south bank of the Yellow River in Hangjin Banner. We aimed to analyze and simulate the flow rate and overall drainage volume in the drainage ditch by developing a soil and water assessment tool (SWAT) model. The measured drainage data were utilized to calibrate and validate the model to explore the structure and sources of drainage in the selected study area. The results indicated that the average annual drainage volume of the study area was 4355.65 × 104 m³, and the primary source of drainage was subsurface drainage, which accounted for approximately 68% of the total drainage. Subsurface flow was the second-largest source, contributing approximately 31%, while surface drainage accounted for a negligible proportion, contributing merely 1% to the drainage. Concerning the proportion of drainage relative to the total drainage in each irrigation area, the Balahey irrigation area accounted for approximately 20%, the Jianshe irrigation area for approximately 45%, and the Dugui irrigation area for approximately 35%. Moreover, the model parameters were optimized using SWAT-CUP software to obtain the R2, NSE, Re, and RMSE values of 0.65, 0.60, −8.54%, and 384.65 × 104 m3, respectively, for the model calibration period, and the corresponding values were 0.63, 0.56, −7.82%, and 389.65 × 104 m3, respectively, for the validation period. The traceability simulation results for irrigation drainage are of crucial importance for the efficient utilization of water resources in this study area.
Case report: Toxic epidermal necrolysis as a unique presentation of acute graft versus host disease in a pediatric patient
Authors: Marlowe Elizabeth , Palmer Rachel , Rahrig April L. , Dinora Devin , Harrison Jessica , Skiles Jodi , Rahim Mahvish Q. 
Published: January 2025

IntroductionAcute graft versus host disease (aGVHD) is a common complication of stem cell transplant (SCT), with skin involvement being most common. Severe presentations of skin aGVHD involving rapid progression of rash to bullae formation and mucosal involvement are rare. There are reports of patients with skin aGVHD that present with clinical characteristics mimicking toxic epidermal necrolysis (TEN), suggesting a possible overlap between the two. Management and outcomes of pediatric patients with this overlapping, severe presentation have rarely been described.Case presentationThis report describes an 11-year-old boy with refractory T-cell acute lymphoblastic leukemia who received peripheral blood SCT from a matched unrelated donor. Day 26 post-SCT, he developed a maculopapular facial rash, which progressed to the development of vesicles coalescing into bullae involving his conjunctiva, face, oral mucosa, and genital mucosa. Initially, systemic steroid monotherapy was initiated, but with rapid rash progression and mucosal involvement, intravenous immunoglobulin (IVIg) 2 g/kg divided over 5 days was added as management for suspected TEN-like aGVHD based on clinical findings. Ruxolitinib was subsequently started as adjunctive management for aGVHD. His skin findings continued to improve with near total resolution by day 49 post-SCT.ConclusionWe report a unique case of TEN-like aGVHD with rapid progression to &gt;30% body surface area involvement including bullae formation and detachment of epidermis. There have been few case reports of similar presentations, most with poor outcomes. We aim to supplement the literature available by reporting our successful management with steroids, IVIg, and ruxolitinib, which resulted in early resolution of symptoms in a pediatric patient.
Single-cell RNA sequencing reveals the dysfunctional characteristics of PBMCs in patients with type 2 diabetes mellitus
Authors: Zhao Jindong , Fang Zhaohui 
Published: January 2025

IntroductionType 2 diabetes mellitus (T2DM) is a disease that involves autoimmunity. However, how immune cells function in the peripheral blood remains unclear. Exploring T2DM biomarkers via single-cell RNA sequencing (scRNA-seq) could provide new insights into the underlying molecular mechanisms.MethodsThe clinical trial registration number is ChiCTR2100049613. In this study, we included three healthy participants and three T2DM patients. The observed clinical indicators included weight and fasting blood glucose (FBG), glycosylated haemoglobin A1c (HbA1c) and fasting insulin levels. Direct separation and purification of peripheral blood mononuclear cells (PBMCs) were performed via the Ficoll density gradient centrifugation method. Immune cell types were identified via scRNA-seq. The differentially expressed genes, biological functions, cell cycle dynamics, and correlations between blood glucose indicators and genes in different cell types were analysed.ResultsThere were differences between the healthy and T2DM groups in terms of FBG and HbA1c (p&lt;0.05 or p&lt;0.01). We profiled 13,591 cells and 3188 marker genes from PBMCs. B cells, T cells, monocytes, and NK cells were grouped into 4 subclusters from PBMCs. CD4+ T cells are mainly in the memory activation stage, and CD8+ T cells are effectors. Monocytes include mainly CD14+ monocytes and FCGR3A+ monocytes. There were 119 differentially expressed genes in T cells and 175 differentially expressed genes in monocytes. Gene set enrichment analysis revealed that the marker genes were enriched in HALLMARK_ INTERFERON_GAMMA_RESPONSE and HALLMARK_TNFA_SIGNALING_VIA_ NFKB. Moreover, TNFRSF1A was identified as the core gene involved in network interactions in T cells.DiscussionOur study provides a transcriptional map of immune cells from PBMCs and provides a framework for understanding the immune status and potential immune mechanisms of T2DM patients via scRNA-seq.Clinical trial registrationhttp://www.chictr.org.cn, identifier ChiCTR2100049613.
The autoimmune disease risk variant NCF1-His90 is associated with a reduced risk of tuberculosis in women
Authors: Hu Xinjun , Li Shasha , Huang Renliang , Fu Ziwei , Ma Chenyu , Cheng Zheng , Hu Hongjun , Zhou Qiaomiao , Petersen Frank , Yu Xinhua , Zheng Junfeng 
Published: January 2025

IntroductionThe neutrophil cytosolic factor 1 (NCF1) rs201802880 polymorphism is a missense mutation resulting in an amino acid substitution from arginine to histidine at position 90, which impairs the function of NADPH oxidase. This casual variant confers an increased risk for multiple autoimmune disorders, including primary Sjögren’s syndrome and systemic lupus erythematosus. Given the high prevalence of this autoimmune disease risk variant in East Asia, we hypothesized that it may confer an evolutionary advantage by providing protection against infectious diseases.MethodsTo test this hypothesis, we investigated whether the NCF1 rs201802880 variant offers a protective effect against tuberculosis (TB), a historically significant and deadly infectious disease. Our study included 490 healthy controls and 492 TB patients who were genotyped for the NCF1 rs201802880 polymorphism.ResultsOur results showed that the NCF1 rs201802880 AA genotype was associated with a reduced risk of TB in women (OR= 0.25, 95% CI: 0.09-0.68, p=0.0023). Additionally, healthy individuals with the NCF1 rs201802880 AA genotype had significantly lower circulating white blood cell (5.56 ± 1.78 vs 6.43 ± 1.59, p=0.003) and neutrophil (3.23 ± 1.20 vs 3.74 ± 1.23, p = 0.02) counts compared to those with the GG or GA genotypes, with this difference being more pronounced in women than in men.ConclusionThis study demonstrates that the autoimmune disease-causal NCF1 variant is associated with a protective effect against TB infection.
A study on the codon usage bias of arenavirus common genes
Authors: Thomas Pablo Daniel , Ferrer María Florencia , Lozano Mauricio J. , Gómez Ricardo Martín 
Published: January 2025

IntroductionThe Arenaviridae family consists of the genera Mammarenavirus, Reptarenavirus, Hartmanivirus, Antennavirus and Innmovirus. The codon usage bias between the different genera has not yet been studied comparatively.MethodsWe retrieved the arenavirus genome sequences from public databases and used bioinformatics tools to compare the codon usage bias between the different genera for the GPC, NP and L proteins, common to all arenaviruses.Results and discussionHartmaniviruses show a larger codon usage bias, which can be partially explained by mutational bias. Patterns of relative use of synonymous codons were maintained within genera, with individual genera differing in their preference for the third nucleotide position in synonymous codons. Of the three proteins examined, the ARN polymerase L protein exhibited a slightly stronger codon usage bias, but overall, the patterns were repeated between genera for the three proteins examined. Our results suggest that codon usage pattern bias in arenaviruses is influenced by selection pressure and to a lesser extent by mutational selection.
Linking machine learning and biophysical structural features in drug discovery
Authors: Ahmadi Armin , Gupta Shivangi , Menon Vineetha , Baudry Jerome 
Published: January 2025

IntroductionMachine learning methods were applied to analyze pharmacophore features derived from four protein-binding sites, aiming to identify key features associated with ligand-specific protein conformations.MethodsUsing molecular dynamics simulations, we generated an ensemble of protein conformations to capture the dynamic nature of their binding sites. By leveraging pharmacophore descriptors, the AI/ML framework prioritized features uniquely associated with ligand-selected conformations, enabling a mechanism-driven understanding of binding interactions. This novel approach integrates biophysical insights with machine learning, focusing on pharmacophoric properties such as charge, hydrogen bonding, hydrophobicity, and aromaticity.ResultsResults showed significant enrichment of true positive ligands—improving database enrichment by up to 54-fold compared to random selection—demonstrating the robustness of this approach across diverse proteins.ConclusionUnlike conventional structure-based or ligand-based screening methods, this work emphasizes the role of specific protein conformations in driving ligand binding, making the process highly interpretable and actionable for drug discovery. The key innovation lies in identifying pharmacophore features tied to conformations selected by ligands, offering a predictive framework for optimizing drug candidates. This study illustrates the potential of combining ML and pharmacophoric analysis to develop intuitive and mechanism-driven tools for lead optimization and rational drug design.
Proof of concept of fully automated adaptive workflow for head and neck radiotherapy treatments with a conventional linear accelerator
Authors: Muti Gaia , Felisi Marco M. J. , Monti Angelo F. , Carsana Chiara , Pellegrini Roberto , Salmeri Edoardo , Palazzi Mauro , Colombo Paola E. 
Published: January 2025

IntroductionThe objective of this study is to evaluate the performance of an automatic workflow for head-and-neck (H&amp;N) radiotherapy using a multi-atlas based auto-contouring software and an a-priori multicriteria plan optimization algorithm and implement an adaptive online approach with CBCT images. Two different modalities are investigated, the fluence-to-position (FTP) and the adapt-to-shape (ATS) approach.Materials and methodsNine patients are used for the multi-atlas database. The organs at risk (OARs) of the H&amp;N district and five additional structures (air, fat, tissue, bone and patient’s exterior) subsequently used for the creation of the synthetic CT are auto-contoured with the Elekta ADMIRE® software. The mCycle algorithm is used for the a-priori multicriteria plan calculation. A total of twenty H&amp;N patients are selected for this step. The automatic plans are compared to manual VMAT plans by assessing differences in planning time, dose delivered to targets and OARs, and calculating the plan quality indexes (PQIs). Two patients are chosen for the retrospective CBCT adaptive online feasibility analysis. To assess the differences for the two adaptive modalities, the clinical goals for targets and OARs and the number of passed constraints are explored. An analysis of the timing for the different steps is carried out to assess its clinical applicability.ResultThe dice of the five HU layer structures range between 0.66 and 0.99. The mCycle auto-planning significantly reduces planning time, from 2 hours to 10 minutes. The radiotherapist deems all plans clinically acceptable, and in the majority of cases the automatic plan is the preference choice. The automatic plans enhance OARs sparing and preserve a good target coverage, this is also confirmed by the PQIs result. Comparing FTP and ATS modes in adaptive radiotherapy, ATS exhibits superior outcomes, mostly in the target coverage. In the FTP techniques target coverage is inadequate and statistically different from the accepted values. In the ATS the results align with the initial approved values. Using the ATS mode the planning time takes around 14 minutes and approximately 20 minutes for the entire treatment.ConclusionThis study contributes to the advancement of automatic and adaptive radiotherapy, demonstrating the potential of an automated workflow in H&amp;N treatments.
Trazodone effectiveness in depression: impacts of trazodone extended release vs SSRIs on the health status and quality of life of patients with major depressive disorder
Authors: Siwek Marcin , Chrobak Adrian Andrzej , Krupa Anna Julia , Gorostowicz Aleksandra , Juryk Andrzej , Dudek Dominika 
Published: January 2025

IntroductionEarly research on the pharmacotherapy for major depressive disorder (MDD) has largely focused on symptomatic improvements, whereas this focus has shifted to functioning and quality of life in recent years. Studies have confirmed that antidepressants generally improve the functional outcomes in MDD, but very few works have compared the efficacies of specific drugs. The present work aims to compare the impacts of trazodone once-a-day extended-release (XR) vs selective serotonin reuptake inhibitors (SSRIs) on the health status and quality of life in MDD.MethodsData were gathered from 180 subjects through a naturalistic observation study of trazodone effectiveness in depression (TED) and analyzed. The TED study participants received trazodone XR of SSRIs in flexible doses for 12 weeks. The health status and health-related quality of life (HRQoL) were evaluated using the EQ-5D-5L tool at baseline as well as 2, 4, 8, and 12 weeks.ResultsAt baseline, the subjects treated with trazodone XR vs SSRIs presented similar health status profiles and HRQoL values with respect to the mobility, self-care, and anxiety/depression dimensions along with lower scores for the usual activities, pain/discomfort, overall HRQoL, and health status. Both trazodone XR and SSRIs improved the health status and HRQoL of the MDD patients at all subsequent timepoints. Compared to SSRIs, trazodone XR provided greater improvements in terms of the self-care, usual activities, pain/discomfort, and anxiety/depression measures and more often improved participant overall health status and HRQoL. More participants reported mixed changes in their health status and HRQoL in the SSRI group than the trazodone XR group.DiscussionHealth status and HRQoL improved in both treatment arms, with preferable scores in trazodone XR vs. SSRIs group.