bluuebunny/crossref_metadata_2025_split huggingface dataset:
Endoscopic diagnosis of gastric carcinoma of fundic gland type: A case report
Authors: Zhu Chen , Jiang Wen , Bian Zhaolian 
Published: February 2025

Rationale:
Gastric carcinoma of fundic gland type is a new type of gastric cancer with a low incidence rate. The mechanism of gastric carcinoma of the fundic gland differs significantly from that of common adenocarcinoma. While it typically presents as a benign growth, there are cases where it can progress to malignancy. If early endoscopy fails to provide an accurate diagnosis and the treatment is inappropriate, the tumor may metastasize and spread.

Patient concerns:
A 61-year-old male, abdominal discomfort, was performed gastroscopy.

Diagnoses:
Gastroscopy revealed a raised lesion approximately 1.8 cm × 1.5 cm in size in the middle of the gastric body, with surface flushing.

Interventions:
The patient was performed endoscopic submucosal dissection.

Outcomes:
The pathology showed gastric carcinoma of fundic gland type SM2, and the cure grade was eCura B. Follow-up review was conducted after communicating with the patient. After 6 months of follow-up, the patient shows no signs of recurrence or metastasis; future observations will require ongoing monitoring. This case emphasizes the difficulties of endoscopic diagnosis, and postoperative pathology confirmed the diagnosis of gastric carcinoma of the fundic gland type.

Lessons:
Gastric carcinoma of the fundic gland type is characterized by low atypia and easy SM invasion. This case highlights the importance of using endoscopy to identify this type, and select appropriate treatment methods. Because the infiltrative characteristics differ from those of conventional early gastric cancer, selecting endoscopic submucosal dissection treatment for lesions smaller than 2 cm can reduce postoperative tumor recurrence and metastasis.
Safety of Transesophageal Echocardiography With the Assistance of a Nurse Practitioner
Authors: Harashima Yuki , Okuno Taishi , Sato Yukio , Shoji Tatsuro , Osabe Kazuko , Ito Rie , Kato Aoi , Kamiyama Akiko , Motodate Noriko , Murata Risako , Oda Ryutaro , Miyahara Daisuke , Kuwata Shingo , Ishibashi Yuki , Kida Keisuke , Tanabe Yasuhiro , Izumo Masaki , Fujitani Shigeki , Akashi Yoshihiro J. 
Published: February 2025

Background:
Due to advancements in cardiovascular intervention technologies, transesophageal echocardiography (TEE) is increasingly used. In Japan, nurse practitioners are being integrated into specialized procedures, including TEE, under physician supervision to address physician shortages and improve patient safety.

Methods:
Consecutive patients undergoing TEE at our outpatient clinic from July 2022 to June 2023 were included, with baseline characteristics, procedural details, and outcomes retrospectively collected.

Results:
A total of 186 patients were included in the study. A significant decrease in blood pressure was observed in 124 patients (68.5%), with 19 patients requiring treatment through infusion loading. Desaturation (SpO2 < 90%) was observed in 105 patients (57.7%). No significant differences in hypotension or hypoxia incidence were found between elderly and younger patients or among TEE indications.

Conclusions:
TEE procedures were safely performed under the assistance of nurse practitioners, demonstrating effective management of the procedural risks associated with this diagnostic technique.
Patient perspectives on the desirability of social worker support in outpatient orthopaedic trauma clinics
Authors: Sprague Sheila , Fleming Natalie , Gonsalves Marc , Al-Asiri Jamal , Johal Herman , Williams Dale , Al-Zahrani Faisal , Gallant Jodi L. , Renaud Sara , Pusztai Kaitlyn , MacRae Sarah , Zalzal Megan , Bzovsky Sofia , Petrisor Brad 
Published: February 2025

Abstract

Objectives:
This study examined the benefits of a dedicated social worker in the fracture clinic setting as perceived by patients and caregivers.

Methods:
This cross-sectional survey engaged patients aged 18 and older presenting to the fracture clinic associated with a level 1 trauma center. Surveys were available in English and Arabic and included 11 questions designed to measure level of agreement with various aspects of social worker presence in the outpatient fracture clinic.

Results:
A total of 199 patients and caregivers participated in this study. Most of the participants were female (61.8%) and older than the age of 50 (57.1%). While there was nuance in the circumstances and issues participants felt were appropriate for social worker assistance, most (95.4%) found the general premise of having a dedicated social worker available in the fracture clinic to be acceptable and believed that it would be beneficial to fracture clinic patients. Participants indicated that social workers could support trauma patients with multiple issues (≥60% level of agreement across all items).

Conclusions:
Orthopaedic trauma patients and their caregivers overwhelmingly support the addition of a dedicated social worker to the fracture clinic, with a high level of agreement across demographic groups and proposed social worker interventions. The patient and caregiver population finds the fracture clinic to be an appropriate and viable setting for the mitigation of nonphysical impacts of orthopaedic trauma. These findings can inform the development of potential future additions of social services to the fracture clinic.

Level of Evidence:
Level IV.
Not all call is created equally: The impact of culture and sex on burnout related to in-house call
Authors: Coleman Jamie J. , Robinson Caitlin K. , von Hippel William , Cohen Mitchell J. 
Published: February 2025

BACKGROUND
In-house call (IHC) has previously been shown to result in increased burnout in acute care surgeons (ACSs). There is wide variation, however, in the implementation and culture of work surrounding IHC across trauma centers and within the demographics of practicing ACSs. We hypothesized that local work practices and culture surrounding IHC as well as sex of ACSs would impact burnout.

METHODS
Continuous physiologic data were collected over 6 months from 224 ACSs who wore a fitness wearable. Acute care surgeons were sent daily surveys to record work, personal activities, and feelings of burnout. The Maslach Burnout Inventory was completed by ACSs at the beginning and end of the study period.

RESULTS
Forty-eight (21.5%) of ACS reported being expected to complete the usual workday after IHC, 94 (42.2%) were expected to finish work from IHC, and 81 (36.3%) were expected to leave immediately after IHC was over. Acute care surgeons expected to complete a usual workday postcall were more likely to be burned out, and IHC resulted in a greater increase in their daily feelings of burnout than among ACSs who reported working in other work cultures. Females showed higher levels of daily burnout than males but no difference in the degree to which IHC led to burnout.

CONCLUSION
In-house call results in increased burnout in all ACSs; however, IHC had a larger impact on daily feelings of burnout in ACSs expected to work without adjustments to their work schedule postcall. Although female ACSs reported higher levels of daily burnout than male ACSs, IHC increased daily feelings of burnout equally between the two sexes. Taken together, these findings necessitate caution about work expectations surrounding IHC and suggest a need for the deliberate creation of a postcall culture for ACS.

LEVEL OF EVIDENCE
Prognostic and Epidemiological; Level III.
ERGA-BGE genome of Noah’s Ark shell (Arca noaeLinnaeus, 1758), a Mediterranean bivalve species
Authors: Vasileiadou Katerina , Manousaki Tereza , Dailianis Thanos , Skouradakis Grigorios , Vernadou Emmanouela , Karakasi Danae , Böhne Astrid , Monteiro Rita , Fernández Rosa , Escudero Nuria , Team Genoscope Sequencing , Moussy Alice , Cruaud Corinne , Labadie Karine , Demirdjian Lola , Téodori Emilie , Duprat Simone , Wincker Patrick , Oliveira Pedro H. , Aury Jean-Marc , Haggerty Leanne , Martin Fergal , Bortoluzzi Chiara 
Published: February 2025

AbstractArca noae, also known as the Noah’s Ark clam, is a bivalve mollusk found in the shallow coastal waters of the Mediterranean Sea and the eastern Atlantic Ocean. This species plays a crucial ecological role by filtering plankton and organic particles from the water, helping maintain water quality and supporting nutrient cycling in marine ecosystems. It is also an important food source for various marine predators, including fish and crustaceans, thereby contributing to the coastal food web.Arca noaeis notably resilient to environmental stressors, such as temperature fluctuations, changes in salinity, and pollution, making it a valuable model species for studying how bivalves adapt and respond to stress. While it is not commonly harvested commercially,Arca noaeis of great interest to marine researchers due to its ability to thrive in diverse coastal habitats. The reference genome ofArca noaewill thus provide important evolutionary insights. The entirety of the genome sequence was assembled into 19 contiguous chromosomal pseudomolecules. This chromosome-level assembly encompasses 1.5 Gb, composed of 257 contigs and 119 scaffolds, with contig and scaffold N50 values of 20.5 Mb and 84.7 Mb, respectively.
Leveraging next-generation phenotyping for ACMG classification from VUS to likely pathogenic in Mowat-Wilson syndrome
Authors: Hsieh Tzung-Chien , Todd Dylan , Warner Taylor , Blankenship Kayla , Saade Dimah , Weiland Hannah , Bhasin Meghna Ahuja , Klinkhammer Hannah , Li Jing-Mei , Krawitz Peter M. , Chen Wei-Liang , Luk Ho-Ming , Tung Moon Ley , Chandra Bharatendu 
Published: February 2025

AbstractBackgroundNext-generation phenotyping (NGP) tools, such as GestaltMatcher, have revolutionized the diagnosis of rare genetic disorders through computational facial analysis. While NGP has been widely integrated into differential diagnosis workflows, its application in variant reclassification within the ACMG framework remains underexplored.MethodsWe applied GestaltMatcher to a pediatrics patient with a severe neurodevelopmental disorder, suspected Mowat-Wilson syndrome (MWS), and a de novoZEB2variant initially classified as a variant of uncertain significance (VUS). In addition to facial image analysis, we utilized the PEDIA framework, integrating Human Phenotype Ontology (HPO) terms and simulated exome data to refine variant prioritization. Bayesian likelihood modeling was used to establish Gestalt score thresholds for PP4 evidence levels (supporting, moderate, strong, and very strong). Brain MRI analysis was also performed to assess structural abnormalities characteristic of MWS.ResultsGestaltMatcher ranked MWS as the top differential diagnosis, and PEDIA integration further confirmedZEB2as the most likely disease-causing gene. Three of the patient’s four facial images met the PP4 moderate threshold, while one met PP4 supporting. Based on these findings, theZEB2variant was reclassified as Likely Pathogenic. MRI analysis revealed subtle corpus callosum thinning, consistent with MWS. Additionally, a validation case of an infant with molecularly confirmed MWS demonstrated the capability of GestaltMatcher to prioritize the diagnosis solely based on infant facial features.ConclusionThis study highlights the potential of NGP-driven facial phenotyping and multimodal integration in variant reclassification. The results support the broader application of AI-assisted phenotyping to improve diagnostic accuracy and ACMG-based variant interpretation, particularly in neurodevelopmental disorders with distinct facial features.
Human Metapneumovirus seroprevalence and PCR trends - Findings from a Tertiary Care Hospital in India
Authors: Yelamanchili Sadhana , Gujjarlapudi Deepika , Mittal Ankit , Chella Nagamani , Yadav Sushma , Dulla Venkata Rajesh , Duvvur Nageshwar reddy 
Published: February 2025

ABSTRACTHuman Metapneumovirus (hMPV) is a paramyxovirus that was detected in India first in 2004. It causes a mild common cold in most cases but serious illness has been reported in some young children, adults >65 years and the immunocompromised.AIMTo study the age related prevalence of IgG antibodies in the population and also to determine the percent positivity and seasonal variation of hMPV infection.MATERIAL AND METHODSThis cross-sectional study assessed seroprevalence by testing 820 serum samples collected between January 25th– 31st2025 for hMPV IgG antibodies by ELISA and stratified according to age and sex. hMPV PCR trends: Retrospective data from the 1276 tests for Respiratory Viruses done at our centre during 2023 and 2024 were analysed and comprised of age groups 0-18, 19-30 ,31-45, 45-60 and > 60 years. The relationship between gender (M/F) and outcome (positive/negative) across various age groups was analysed using the chi-square test for independence in Graph Pad Prism 8.0.RESULTS: Seroprevalence studyOverall hMPV IgG Antibody Positivity was 53.4%. Antibody positivity was higher in above 60 years when compared to other groups and was statistically significant (P=0.0001) and female predominance is seen.In hMPV PCR trendsA higher percentage of positivity were observed in > 60years individuals who had hospitalisation when compared to the other groups which was statistically significant(P=0.0001). Overall Percent positivity was 7.8% in 2023 and 3.8% in 2024. Seasonal peaks occurred in Feb-Mar and Oct. 92.6% of patients were discharged and doing well on follow-up and only 7.4% deaths were seen.CONCLUSIONOur findings highlight around 53.4% of the total study population had hMPV IgG antibodies. PCR positivity and antibody positivity was higher in individuals over 60 who had other comorbidities. Hospitalization and mortality rates are significantly high in this high risk groups. Vaccine development for high-risk individuals is recommended.
Shaping of developmental gradients through selection on multiple loci inAntirrhinum
Authors: Bradley Desmond , Boell Louis , Richardson Daniel , Copsey Lucy , Whibley Annabel , Xu Ting , Zhang Yue , Xue Yongbiao , Field David , Coen Enrico 
Published: February 2025

AbstractDevelopment depends on precise shaping of molecular gradients, but how natural selection acts to establish precision is unknown. Here we analyse genes that control differences in the gradient of yellow flower colour between two varieties of snapdragon (Antirrhinum). We show that these differences depend, in part, oncisregulatory variation in the pigment biosynthetic gene,FLAVIA(FLA).FLAinteracts multiplicatively with three other loci, one of which is atrans-acting regulator ofFLA, to further shape the yellow gradient. All the loci exhibit clines at a hybrid zone, with widths that correlate with phenotypic effect, showing how selection can hone gradient shape with remarkable precision by acting oncisandtransvariation at multiple loci.
Programming alphavirus with IFN-γ overrides the adverse effects of macrophages on oncolytic virotherapy
Authors: Horvathova Laura , Janzen Thijs , Hoogeboom Baukje Nynke , Weissing Franz J. , Daemen Toos , Bhatt Darshak K. 
Published: February 2025

AbstractVirus uptake by tumor-associated macrophages may significantly reduce the availability of oncolytic viruses for cancer cell infection and limit therapeutic efficacy. Through a computational model, we hypothesized that oncolytic viruses encoding a T cell-stimulating signal like IFN-γ can enhance efficacy regardless of macrophages. To test this, we engineered an alphavirus-based replicon expressing IFN-γ and studied its effect in various tumor-immune coculture systems. While alphavirus replicons do not replicate in macrophages, macrophages readily take up the virus, limiting tumor infection in a frequency-dependent but phenotype-independent manner. However, virus uptake activates the pro-inflammatory responses, further enhanced by neighboring cancer cells expressing virus-encoded IFN-γ. Consequently, T-cell activation was ensured even when a fraction of infected tumor cells expressed IFN-γ, regardless of macrophage presence, frequency, or phenotype. These findings suggest a strategy for optimizing oncolytic virotherapy in tumors with high macrophage infiltration by designing viruses that can stimulate T-cell activation, ensuring therapeutic efficacy.
Targeted genomic surveillance of insecticide resistance in African malaria vectors
Authors: Nagi Sanjay C , Lucas Eric R , Ashraf Faisal , Mugoya Trevor , Lukyamuzi Edward , Summers Shannan , Yee Calvin , Jacob Christopher G , Njoroge Harun , Pemberton Thomas , Essandoh John , Lukindu Martin , Kaboré Honorine , Sawadogo Grégoire , Williams Jessica , Van‘t Hof Arjen E. , Hernandez-Koutoucheva Anastasia , Hubbart Christina , Rowlands Kate , Jeffreys Anna , Goodwin Scott , Park Naomi , Ariani Cristina , Egyir-Yawson Alexander , Goncalves Sonia , Rajatileka Shavanthi , Rockett Kirk , Simpson Victoria J. , Miles Alistair , Weetman David , Kayondo Jonathan , Nolan Tony , Donnelly Martin J 
Published: February 2025

AbstractThe emergence of insecticide resistance is threatening the efforts of malaria control programmes, which rely heavily on a limited arsenal of insecticidal tools, such as insecticide-treated bed nets. Importantly, genomic surveillance of malaria vectors can provide critical, policy-relevant insights into the presence and evolution of insecticide resistance, allowing us to maintain and extend the shelf life of these interventions. Yet the complex genetic architecture of resistance, combined with resource constraints in malaria-endemic settings, have thus far precluded the widespread use of genomics in routine surveillance. Meanwhile, stakeholders in sub-Saharan Africa are moving towards locally driven, decentralised generation of genomic data, underscoring the need for standardised and robust genomics workflows. To address this need, we demonstrate an approach to targeted genomic surveillance inAnopheles gambiae s.lwith Illumina sequencing. We target 90 genomic loci in theAnopheles gambiae s.lgenome, including 55 resistance-associated mutations and 35 ancestry informative markers. This protocol is coupled with advanced, automated software for accurate and reproducible variant analysis. We are able to elucidate population structure and ancestry in our cohorts and accurately identify most species in theAn. gambiaespecies complex. We report frequencies of variants at insecticide-resistance loci and explore the continued evolution of the pyrethroid target site, theVoltage-gated sodium channel.Applying the platform to a recently established colony of field-caught resistant mosquitoes (Siaya, Kenya), we identified seven independent resistance-associated variants contributing to reduced efficacy of insecticide-treated nets in East Africa. Additionally, we leverage a machine learning algorithm (XGBoost) to demonstrate the possibility of predicting bioassay mortality using genotypes alone. This achieved very high accuracy (73%), demonstrating the potential of targeted genomics to predictively monitor insecticide resistance. Together these tools provide a practical, scalable solution for resistance monitoring while advancing the goal of building local genomic surveillance capacity in sub-Saharan Africa.
Keratins coordinate tissue spreading by balancing spreading forces with tissue material properties
Authors: Naik Suyash , Keta Yann-Edwin , Pranjic-Ferscha Kornelija , Hannezo Édouard , Henkes Silke , Heisenberg Carl-Philipp 
Published: February 2025

AbstractFor tissues to spread, they must be deformable while maintaining their structural integrity. How these opposing requirements are balanced within spreading tissues is not yet well understood. Here, we show that keratin intermediate filaments function in epithelial spreading by adapting tissue mechanical resilience to the stresses arising in the tissue during the spreading process. By analysing the expansion of the enveloping cell layer (EVL) over the large yolk cell in early zebrafish embryosin vivo, we found that keratin network maturation in EVL cells is promoted by stresses building up within the spreading tissue. Through genetic interference and tissue rheology experiments, complemented by a vertex model with mechanochemical feedback, we demonstrate that stress-induced keratin network maturation in the EVL increases tissue viscosity, which is essential for preventing tissue rupture. Interestingly, keratins are also required in the yolk cell for mechanosensitive actomyosin network contraction and flow, the force-generating processes pulling the EVL. These dual mechanosensitive functions of keratins enable a balance between pulling force production in the yolk cell and the mechanical resilience of the EVL against stresses generated by these pulling forces, thereby ensuring uniform and robust tissue spreading.
DNA-PAINT imaging with hydrogel imprinting and clearing
Authors: Stein Johannes , Magni Lorenzo , Church George M. 
Published: February 2025

AbstractHydrogel-embedding is a versatile technique in fluorescence microscopy, offering stabilization, optical clearing, and the physical expansion of biological specimens. DNA-PAINT is a super-resolution microscopy approach based on the diffusion and transient binding of fluorescently labeled oligos, but its feasibility in hydrogels has not yet been explored. In this study, we demonstrate that polyacrylamide hydrogels support sufficient diffusion for effective DNA-PAINT imaging. Using acrydite-anchored oligonucleotides imprinted from patterned DNA origami nanostructures and microtubule filaments in fixed cells, we find that hydrogel embedding preserves docking strand positioning at the nanoscale. Sample clearing via protease treatment had minor structural effects on the microtubule structure, and enhanced diffusion and accessibility to hydrogel-imprinted docking strands. Our work demonstrates promising potential for diffusion and binding-based fluorescence imaging applications in hydrogel-embedded samples.Graphical abstract
Microglia Adopt Temporally Specific Subtypes after Irradiation, Correlating with Neuronal Asynchrony
Authors: Romero Alejandro Lastra , Preka Efthalia , Pizzirusso Giusy , Arroyo-García Luis Enrique , Zisiadis Georgios Alkis , Oliva-Vilarnau Nuria , Seitz Thea , Zhou Kai , Isla Arturo Gonzalez , Friess Lara , Sun Ying , Shamikh Alia , Xu Yiran , Zhu Changlian , Rodrigues Carlos F. D. , Fisahn André , Joseph Bertrand , Carlson Lena-Maria , Fragkopoulou Adamantia , Lauschke Volker M , Betsholtz Christer , Osman Ahmed M , Blomgren Klas 
Published: February 2025

SummaryCranial radiotherapy causes progressive neurocognitive impairments in cancer survivors. Neuroinflammation is believed to be a key contributor, but its dynamics and consequences for brain function remain poorly understood. Here, we performed comprehensive longitudinal profiling, from 6 hours to 1 year after irradiation (IR) of the mouse hippocampus, using transcriptomic, protein and histological analyses. We identified a delayed microglial response coupling interferon signaling to mitotic progression, and a subsequent induction of temporally regulated subtypes. IR rewired the parenchymal phagocyte profiles due to progressive microglial loss, failure of repopulation through self-renewal and compensatory generation of microglia-like cells derived from peripheral monocytes. These findings were confirmed in autopsied human brain. Finally, we demonstrate two phases of neuronal asynchrony, an early one associated with inflammation and a late one associated with synaptic aberrant regulation. These results provide comprehensive, longitudinal insights into microglia responses that can aid tailoring therapies to preserve cognition in cancer survivors.