bluuebunny/crossref_metadata_2025_split huggingface dataset:
Tumor immunogenicity regulates host immune responses, and conventional dendritic cell type 2 uptakes the majority of tumor antigens in an orthotopic lung cancer model
Authors: Kim Ki-Hyun , Kim Seung-jae , Eccles Jacob D. , Ascoli Christian , Park Gye Young 
Published: October 2024

AbstractHuman lung cancer carries high genetic alterations, expressing high tumor-specific neoantigens. Although orthotopic murine lung cancer models recapitulate many characteristics of human lung cancers, genetically engineered mouse models have fewer somatic mutations than human lung cancer, resulting in scarce immune cell infiltration and deficient immune responses. The endogenous mouse lung cancer model driven by Kras mutation and Trp53 deletion (KP model) has minimal immune infiltration because of a scarcity of neoantigens. Fine-tuning tumor antigenicity to trigger the appropriate level of antitumor immunity would be key to investigating immune responses against human lung cancer. We engineered the KP model to express antigens of OVA peptides (minOVA) as neoantigens along with ZsGreen, a traceable fluorescent conjugate. The KP model expressing minOVA exhibited stronger immunogenicity with higher immune cell infiltration comprised of CD8+ T cells and CD11c+ dendritic cells (DCs). Consequently, the KP model expressing minOVA exhibits suppressed tumor growth compared to its origin. We further analyzed tumor-infiltrated DCs. The majority of ZsGreen conjugated with minOVA was observed in the conventional type 2 DCs (cDC2), whereas cDC1 has minimal. These data indicate that tumor immunogenicity regulates host immune responses, and tumor neoantigen is mostly recognized by cDC2 cells, which may play a critical role in initiating antitumor immune responses in an orthotopic murine lung cancer model.
Decision regret analysis in early URSL vs medical expulsive therapy 1 for ureteric calculi ≤ 1cm
Authors: Singh Anshuman , Chawla Arun , Gali Kasi Viswanath , Bhaskara Sunil Pillai , Hegde Padmaraj , Kothuri Charan , de la Rosette Jean , Laguna Pilar 
Published: October 2024

Abstract
Background
The study assesses the decisional regret following Shared Decision-making (SDM) in patients selecting either early ureteroscopic lithotripsy (URSL) or medical expulsive therapy (MET) for ureteric stones ≤ 1 cm, with the aim to evaluate their decisional Conflict, satisfaction, and regret regarding their opted treatment choices.

Methods
Adults aged more than 18 years with one stone up to 1 cm in either ureter were included. After SDM, the patients were allocated into their opted group viz. URSL or MET. Patients in each group were reassessed at “treatment completion”. Cambridge Ureteric Stone PROM (CUSP) questionnaire for HRQoL, Decision Regret Scale and the OPTION scale (SDM) were filled at treatment completion.

Findings
111 patients opted for MET, while 396 patients opted for early URSL. Mean stone size was larger in URSL group (7.16 ± 1.63 mm vs. 5.50 ± 1.89; p < 0.001). Decisional conflict was higher in patients opting for URSL (77.3% vs. 57.7%; p < 0.001). Stone-free rate at four weeks was higher in URSL group (87.1%vs68.5%, p < 0.001). Decisional regret was higher in patients opting for MET (33.24 ± 30.89 vs. 17.26 ± 12.92; p = 0.002). Anxiety, was higher in patients opting for MET (6.94 ± 1.89 vs. 5.85 ± 1.54; p < 0.001). Urinary symptoms and interference in patients’ travel plans and work-related activities were more in URSL group (6.21 ± 1.57 vs. 5.59 ± 1.46; p < 0.001 and 6.56 ± 1.59 vs. 6.05 ± 1.72; p < 0.001 respectively).

Interpretation
After SDM, decisional regret is higher in patients opting for MET mainly due protracted treatment duration with increased pain and anxiety during the treatment course and the need for additional procedure for attaining stone clearance and the. Despite higher decisional conflict, a larger proportion of patients opt for early URSL with the aim of avoiding anxiety and achieving early stone clearance.
The importance of gut microbiome in the perinatal period
Authors: Catassi Giulia , Mateo Sandra Garcia , Occhionero Annamaria Sara , Esposito Chiara , Giorgio Valentina , Aloi Marina , Gasbarrini Antonio , Cammarota Giovanni , Ianiro Gianluca 
Published: October 2024

AbstractThis narrative review describes the settlement of the neonatal microbiome during the perinatal period and its importance on human health in the long term. Delivery methods, maternal diet, antibiotic exposure, feeding practices, and early infant contact significantly shape microbial colonization, influencing the infant’s immune system, metabolism, and neurodevelopment. By summarizing two decades of research, this review highlights the microbiome’s role in disease predisposition and explores interventions like maternal vaginal seeding and probiotic and prebiotic supplementation that may influence microbiome development.Conclusion: The perinatal period is a pivotal phase for the formation and growth of the neonatal microbiome, profoundly impacting long-term health outcomes.

What is Known::• The perinatal period is a critical phase for the development of the neonatal microbiome, with factors such as mode of delivery, maternal diet, antibiotic exposure, and feeding practices influencing its composition and diversity, which has significant implications for long-term health.• The neonatal microbiome plays a vital role in shaping the immune system, metabolism, and neurodevelopment of infants.

What is New:• Recent studies have highlighted the potential of targeted interventions, such as probiotic and prebiotic supplementation, and innovative practices like maternal vaginal seeding, to optimize microbiome development during the perinatal period.• Emerging evidence suggests that specific bacterial genera and species within the neonatal microbiome are associated with reduced risks of developing chronic conditions, indicating new avenues for promoting long-term health starting from early life.
3D monitors improve performance on the HUGO™ RAS system: a randomised trial
Authors: Østdal Theresa Bruun , Tang Diana Hai Yen , Olsen Rikke Groth , Olsen Louise Møller , Konge Lars , Bjerrum Flemming 
Published: October 2024

Abstract
Background
Robot-assisted surgery is used worldwide, allowing surgeons to perform complex surgeries with increased precision and flexibility. It offers technical benefits compared to traditional laparoscopic surgery due to its utilization of both 3D vision and articulated instruments. The objective was to investigate the isolated effect of 3D- versus 2D monitors when working with articulated instruments in robot-assisted surgery.

Methods
Surgical novices (medical students, n = 31) were randomized to simulation-based training with either the 3D vision switched on or off. Both groups completed each of the four exercises six times over two sessions on the Medtronic Hugo™ RAS system simulator. The outcome was the simulator performance parameters and a visual discomfort questionnaire.

Results
For the efficiency parameters, we found that both groups improved over time (p < 0.001) and that the intervention group (3D) consistently outperformed the control (2D) group (p < 0.001). On the other hand, we didn’t find any significant difference in the error metrics, such as drops (p-values between 0.07 and 0.57) and instrument collisions (p-values between 0.09 and 0.26). Regarding Visual Discomfort, it was significantly more difficult for the 3D group to focus (p = 0.001).

Conclusion
3D monitors for an open robotic console improve efficiency and speed compared to 2D monitors in a simulated setting when working with articulated instruments.
Living together—does it help or hinder the pursuit of a healthful diet, physical activity, and weight loss among cancer survivors and their chosen partners?
Authors: Kaur Harleen , Pavela Gregory , Pekmezi Dori W. , Rogers Laura Q. , Cole W. Walker , Parrish Kelsey B. , Sayer R. Drew , Wyatt Holly R. , Crane Tracy E. , Badr Hoda , Demark-Wahnefried Wendy 
Published: October 2024

Abstract
Purpose
Parental or spousal cohabitating relationships are often targeted in behavioral interventions, but the contribution of cohabitation is poorly understood. This study explored whether cohabitation status moderated the impact of social cognitive theory constructs on adiposity, diet, and exercise in a dyadic, web-based weight loss intervention among cancer survivors and their chosen partners.

Methods
The 24-week weight loss intervention was conducted among 56 dyads, comprised of a cancer survivor and their chosen partner (n = 112). Baseline and 6-month data on social cognitive theory constructs (self-efficacy, social support, and perceived barriers), and study outcomes of adiposity (weight and waist circumference), diet (calories and diet quality), and moderate-to-vigorous physical activity (MVPA) were used to perform moderated-mediation analyses among cohabitating (n = 25) versus non-cohabitating (n = 31) dyads.

Results
The intervention was positively associated with dietary social support (path a1: 0.36, 95% CI [0.083, 0.659]) and inversely associated with perceived dietary barriers (path a1: − 10.57, 95% CI [− 19.109, − 3.091]) and perceived exercise barriers (path a1: − 11.29, 95% CI [− 22.098, − 3.500]) among those who did not cohabitate (effects not observed among cohabitating pairs). The intervention’s mediating effects through perceived barriers on weight (indirect effect (ab): − 2.21, 95% CI [− 4.794, − 0.548]), waist circumference (ab: − 1.13, 95% CI [− 2.452, − 0.171]), caloric intake (ab: − 5.09 (2.86), 95% CI [− 12.602, − 0.709]), and self-reported MVPA (ab: 0.29 (0.18), 95% CI [0.019, 0.754]) also were stronger among non-cohabitating pairs.

Conclusions
These findings suggest that social support partners outside the home substantially enhance intervention impact, though relationship quality and gender dynamics warrant further exploration.

Trial registration
ClinicalTrials.gov Identifier: NCT04132219.
Tailored surgical approaches for spinal chordomas: A multidisciplinary perspective
Authors: Klein Lukas , Lenga Pavlina , Dao Trong Philip , Kleineidam Helena , Krieg Sandro M. , Ishak Basem 
Published: October 2024

Abstract

Introduction
The treatment of spinal chordomas presents a significant challenge due to their resistance to both radiotherapy and chemotherapy as well as the complexity of the surgical procedures required. This study presents a series of cases of primary spinal chordomas, focusing on the development of a personalized therapeutic strategy that is tailored to each patient's unique clinical status. This approach aims to ensure that treatments are optimally aligned with the patient’s overall prognosis and surgical eligibility.

Methods
This retrospective study analyzed 14 patients with primary spinal chordomas treated at our institution. We evaluated surgical strategies, clinical outcomes, and survival rates, The therapeutic strategy was formulated after interdisciplinary conferences with sarcoma management specialists. Data were collected on patient demographics, surgical details, postoperative outcomes, and follow-up status.

Results
All patients presented with neurological deficits preoperatively, which generally improved post-surgery. The study included a detailed analysis of two distinct surgical approaches: five patients underwent en bloc resection with dorsal stabilization and nine received decompression only. Patients undergoing en bloc resection showed a reduced need for additional surgery due to the comprehensive removal of the tumor. As anticipated, 40% of the patients who underwent decompression experienced tumor progression within the first three months. However, given the poor overall prognosis, the objective of maintaining neurological function was achieved.

Conclusions
Surgical en bloc resection offers a viable and effective intervention for spinal chordomas, enhancing neurological function. It is imperative to tailor treatment strategies to individual prognoses, integrating insights from multidisciplinary discussions that meticulously evaluate surgical risks. This collaborative approach aids in selecting the most appropriate surgical technique tailored to each patient’s specific condition.
Is there an association between salivary immune and microbial profile with dental health in systematically healthy children?
Authors: Davidovich Esti , Sarne Hadar , Shmueli Aviv , Polak David 
Published: October 2024

Abstract
Objective
This study aimed to characterize the inflammatory profile of systemically healthy children’s saliva and its association with clinical diagnoses of caries and gingival inflammation.

Materials and methods
Unstimulated saliva was collected from 100 children before clinical dental examinations. The saliva samples were analyzed for total protein and specific inflammatory cytokines (IL-10, IL-8, IL-6, and TNFα) with Bradford and ELISA assays, respectively. Salivary bacteria were quantified using a quantitative real-time polymerase chain assay. The salivary values were then correlated with age, DMFT index, plaque index (PI), and gingival index (GI).

Results
The mean age of the cohort was 8.08 ± 0.23 years with 49% females, the mean DMF of the cohort was 2.64 ± 0.31, the mean GI was 0.51 ± 0.06, and the mean PI was 1.33 ± 0.07. Significant correlations were found between PI with DMFT and GI. Children with DMFT > 2 had significantly higher levels of IL-8 compared with children with DMFT ≤ 2. IL-6 and TNFα were significantly higher among children with PI > 1 than among children with PI ≤ 1.

Conclusions
Salivary cytokine were found to be associate with clinical parameters as DMFT and PI, thus may be a potential tool that reflects dental health status.

Clinical relevance
The presence of salivary cytokines in children may reflect evaluation of dental caries and oral inflammation.
Biosynthesis and potential application of sustainable lignocellulolytic enzymes cocktail for the development of eco-friendly multifunctional cellulosic products
Authors: Ibrahim Nabil A. , Abdel-Aziz Mohamed S. , Hamed Ahmed A. , Amin Hala A. , Yassin Mohamed A. , Eid Basma M. 
Published: October 2024

Abstract
The main task of the present research work is to search for appropriate fungal strains isolated from corn cob and orange peel wastes with the potential to produce a sustainable lignocellulolytic enzyme cocktail for surface modification and post-functionalization of cellulosic substrates. In this study, seven fungal isolates were selected for the investigation of potential lignocellulolytic enzyme producers using solid-state fermentation. Fungal isolate no. 5 grown on corn cob powder showed the highest activity in producing lignocellulolytic enzymes. The activity levels of cellulases (FPU, 2.679 U/ml; CMCase, 3.071 U/ml; salicinase, 3.139 U/ml), xylanase (15.798 U/ml), pectinase (6.278) U/ml, and laccase (9.841 U/ml) were determined. Isolate 5 was identified using rRNA gene sequence ITS1 and ITS2 as Penicillium subrubescens STDF-EG (GenBank Accession Number PP151275). Penicillium subrubescens STDF-EG lignocellulolytic cocktail enzyme was used to modify the surface properties and enhance the post-functional finishing of different cellulosic substrates, namely gray cotton knitted, woven, and denim fabrics using silicone microemulsion softener and vanillin as functional additives. The extent of surface modification and post-multifunctionalization is governed by the type of substrate and enzyme dose. This study demonstrates that the suggested regime is an eco-friendly promising method for developing sustainable antibacterial/anti-UV/softer hand feel/fragrance release multifunctional properties.

Graphical abstract
Diagnostic performance of TILs–US score and LPBC in biopsy specimens for predicting pathological complete response in patients with breast cancer
Authors: Shigematsu Hideo , Fukui Kayo , Kanou Akiko , Yokoyama Erika , Tanaka Makiko , Fujimoto Mutsumi , Suzuki Kanako , Ikejiri Haruka , Amioka Ai , Hiraoka Emiko , Sasada Shinsuke , Emi Akiko , Nakagiri Tetsuya , Arihiro Koji , Okada Morihito 
Published: October 2024

Abstract
Background
Tumor-infiltrating lymphocytes–ultrasonography (TILs–US) score is used to predict lymphocyte-predominant breast cancer (LPBC) in surgical specimens. We aimed to compare diagnostic performance of TILs–US score for predicting pathological complete response (pCR) with that of LPBC in biopsy specimens.

Methods
TILs ≥ 50% in biopsy specimens was defined as biopsy–LPBC, and TILs–US score ≥ 4 was categorized as TILs–US score-high. Basic nomogram for pCR was developed using stepwise logistic regression based on the smallest Akaike Information Criterion, and biopsy–LPBC and TILs–US score nomograms were developed by integrating biopsy–LPBC or TILs–US scores into a basic nomogram. The diagnostic performance of the nomograms for pCR was compared using area under the curve (AUC), categorical net reclassification improvement (NRI), and integrated discrimination improvement (IDI).

Results
This retrospective study evaluated 118 patients with breast cancer, including 33 (28.0%) with biopsy–LPBC, 52 (44.1%) with TILs–US score-high, with 34 (28.8%) achieving pCR. The sensitivity, specificity, positive likelihood ratio, negative likelihood ratio, and AUC for predicting pCR were 0.53, 0.82, 2.96, 0.57, and 0.68, respectively, for biopsy–LPBC, and 0.76, 0.69, 2.47, 0.34, and 0.73, respectively, for TILs–US score. The biopsy–LPBC nomogram showed significant improvements in categorical NRI (p = 0.023) and IDI (p = 0.007) but not in AUC (p = 0.25), compared with the basic nomogram. The TILs–US nomogram exhibited significant improvements in AUC (p = 0.039), categorical NRI (p = 0.010), and IDI (p < 0.001).

Conclusions
The TILs–US score may serve as a novel marker for prediction of pCR in patients with breast cancer. An external validation study is warranted to confirm our findings.
Informing macrologistics connectivity in emerging economies through a triangulated research approach: the case of Uzbekistan
Authors: Simpson Zane P. 
Published: October 2024

AbstractUzbekistan has the potential to become a regional hub linking Southeast Asia, South Asia, the Commonwealth of Independent States and Europe. In order to inform the implementation of Uzbekistan’s Strategy for the Development of the Transport System, a triangulated research approach was followed to develop a spatially and commodity-level freight flow model for the country. The model outputs highlight that freight flow distribution is heavily skewed towards the East, that the country has significant exposure to freight risks beyond the borders due to the inordinate long distances of cross-border flows, and that demand for transport, and logistics costs, are high relative to gross domestic product. Transport policy, infrastructure development and the role of transport and logistics in development planning should therefore be prioritised as a strategic input into economic growth and development success, including the intelligence that enables these activities. There seem to be opportunities for domestic and regional consolidation, which can lead to the improved use of rail and intermodal solutions and support the development of effective special economic zones. These outputs can be refined with access to more detailed data.
Paenibacillus spp. may facilitate anaerobic soil disinfestation at low temperatures
Authors: Pitti Eduardo , Momma Noriaki , Kobara Yuso , Usami Toshiyuki , Shishido Masahiro 
Published: October 2024

AbstractWe screened for bacteria that may facilitate the suppressive effect on Ralstonia pseudosolanacearum at temperatures < 30 °C after anaerobic soil disinfestation (ASD) with 1% v/v ethanol. Among 22 isolates grown anaerobically, we selected three that significantly suppressed R. pseudosolanacearum population after ASD at 25 °C. Based on the 16 S rRNA sequences, two isolates were inferred as Paenibacillus polymyxa and the other as Paenibacillus sp. Using qPCR primers designed for these strains, we found that all strains increased in the soil after ASD at 25 °C. After ASD with 1% v/v ethanol and with or without soil inoculation with these three strains in a concrete frame in the field at mean temperature of 26.3 °C, the R. pseudosolanacearum population was significantly lower in the inoculation treatment at a depth of 10 cm. These results suggest that these Paenibacillus strains have the potential to promote the ASD effect using 1% ethanol at low temperatures.
Rainfall events stimulate episodic associative nitrogen fixation in switchgrass
Authors: Vizza Carmella , Belanger Matthew A. , Jones Jabarius , Murphy Sean J. , Buckley Daniel H. , Robertson G. Philip , Roley Sarah S. 
Published: October 2024

AbstractAssociative N2 fixation (ANF) is widespread but poorly characterized, limiting our ability to estimate global inputs from N2 fixation. In some places, ANF rates are at or below detection most of the time but occasionally and unpredictably spiking to very high rates. Here we test the hypothesis that plant phenology and rainfall events stimulate ANF episodes. We measured ANF in intact soil cores in switchgrass (Panicum virgatum L.) in Michigan, USA. We used rain exclusion shelters to impose three rainfall treatments with each receiving 60 mm of water over a 20-day period but at different frequencies. We concurrently established a treatment that received ambient rainfall, and all four treatments were replicated four times. To assess the effects of plant phenology, we measured ANF at key phenological stages in the ambient treatment. To assess the effects of rainfall, we measured ANF immediately before and immediately after each wetting event in each treatment involving rainfall manipulation. We found that the previous day’s rainfall could explain 29% of the variation in ANF rates within the ambient treatment alone, and that bulk soil C:N ratio was also positively correlated with ANF, explaining 18% of the variation alone. Wetting events increased ANF and the magnitude of response to wetting increased with the amount of water added and decreased with the amount of inorganic N added in water. ANF episodes thus appear to be driven primarily by wetting events. Wetting events likely increase C availability, promote microbial growth, and make rhizosphere conditions conducive to ANF.
Inference for bivariate extremes via a semi-parametric angular-radial model
Authors: Murphy-Barltrop Callum John Rowlandson , Mackay Ed , Jonathan Philip 
Published: October 2024

AbstractThe modelling of multivariate extreme events is important in a wide variety of applications, including flood risk analysis, metocean engineering and financial modelling. A wide variety of statistical techniques have been proposed in the literature; however, many such methods are limited in the forms of dependence they can capture, or make strong parametric assumptions about data structures. In this article, we introduce a novel inference framework for bivariate extremes based on a semi-parametric angular-radial model. This model overcomes the limitations of many existing approaches and provides a unified paradigm for assessing joint tail behaviour. Alongside inferential tools, we also introduce techniques for assessing uncertainty and goodness of fit. Our proposed technique is tested on simulated data sets alongside observed metocean time series’, with results indicating generally good performance.