bluuebunny/crossref_metadata_2025_split huggingface dataset:
CRISPR/Cas9 screenings unearth protein arginine methyltransferase 7 as a novel driver of metastasis in prostate cancer
Authors: Gutierrez-Uzquiza Alvaro , Rodrigo-Faus Maria , Vincelle-Nieto Africa , Vidal Natalia , Puente Javier , Saiz-Pardo Melchor , Lopez-Garcia Alejandra , Mendiburu-Eliçabe Marina , Palao Nerea , Baquero Cristina , Cuesta Angel , Qu Hui-Qi , Hakonarson Hakon , Musteanu Monica , Reyes-Palomares Armando , Porras Almudena , Bragado Paloma 
Published: September 2023

Abstract
Owing to the inefficacy of available treatments, the survival rate of patients with metastatic prostate cancer (mPCa) is severely decreased. Therefore, it is crucial to identify new therapeutic targets to increase the survival of mPCa patients. This study aim was to identify the most relevant regulators of mPCa onset by performing two high-throughput CRISPR/Cas9 screenings. Furthermore, some of the top hits were validated using small interfering RNA (siRNA) technology, with protein arginine methyltransferase 7 (PRMT7) being the best candidate. Its inhibition, by genetic and pharmacological approaches, or its depletion, via CRISPR, significantly reduced mPCa cell capacities in vitro. Furthermore, PRMT7 ablation reduced mPCa appearance in chicken chorioallantoic membrane and mouse xenograft assays. Molecularly, PRMT7 reprograms the expression of several adhesion molecules through methylation of several transcription factors, such as FoxK1 or NR1H2, which results in primary tumor PCa cell adhesion loss and motility gain. Moreover, PRMT7 is upregulated in advanced stages of Spanish PCa tumor samples and PRMT7 pharmacological inhibition reduces the dissemination of mPCa cells. Thus, here is shown that PRMT7 is a potential therapeutic target and biomarker of mPCa.
Simulation Tool for Optical Systems: Evaluating and Optimizing Autofocals and Beyond
Authors: Hosp Benedikt , Sauer Yannick , Agarwala Rajat , Wahl Siegfried 
Published: September 2023

Abstract
The development and evaluation of autofocal glasses require robust and efficient tools for assessing their performance in various real-world scenarios. This study presents a novel virtual reality (VR) simulation tool designed to evaluate the control algorithms of autofocal glasses. The tool incorporates a matching task involving Landolt rings and Sloan letters presented on different screens at varying distances and a NASA Task Load Index (TLX) questionnaire to assess participants’ subjective workload and convenience. By employing this experimental design, we aimed to gain insights into the effectiveness and efficiency of the evaluated control algorithms for autofocals within our VR-based simulation tool. Our results indicate that the developed VR simulation tool provides a valuable platform for assessing the performance of autofocal glasses in a controlled environment, ultimately contributing to the development of more efficient and user-friendly autofocal glasses.
Comparative Clinical Outcomes of Percutaneous Coronary Intervention and Coronary Artery Bypass Grafting in Left Main Coronary Artery Disease: Impacts of the SYNTAX score I, II and SYNTAX score II 2020
Authors: Sung Wei-Ting , Chuang Ming-Ju , Tsai Yi-Lin , Chou Ruey-Hsing , Chang Chun-Chin , Huang Po-Hsun 
Published: September 2023

Abstract
Introduction
Patients with left main coronary artery disease (LMCAD) with a high SYNTAX score (SS) were excluded from randomized studies that comparing percutaneous coronary intervention (PCI) and coronary artery bypass grafting (CABG). We sought to compare PCI and CABG in the real-world practice and investigate the impact of SS I, SS II, and SS II 2020 on clinical outcomes.
Methods
In total, 292 Patients with LMCAD (173 PCI, 119 CABG) treated between 2017 and 2021 were enrolled. The primary outcome was major adverse cardiovascular events (MACE), a composite of all-cause death, stroke, or myocardial infarction (MI).
Results
The mean SS I was high in both groups (PCI vs. CABG: 31.64 ± 11.45 vs. 32.62 ± 11.75, P = 0.660). The primary outcome occurred in 28 patients (16.2%) in the PCI group and in 19 patients (16.0%) in the CABG group without significant difference [adjusted hazard ratio, 95% CI = 0.98 (0.51–1.90), P = 0.97] over the follow-up period (26.9 ± 17.7 months). No significant difference was observed in all-cause mortality (11.6% vs. 11.8%, p = 0.93) or stroke rates (3.5% vs. 5.0%, p = 0.51) between groups. However, PCI was associated with higher MI (4.6% vs. 0.8%, p < 0.05) and revascularization rates (26% vs. 5.9%, p < 0.001). Prognostic value of the SS I, SS II and SS II 2020 on the primary outcome was not relevant in the PCI group.
Conclusion
Among patients with LMCAD, PCI and CABG did not significantly differ in the composite endpoint of all-cause death, stroke, and MI. These results support the potential expansion of PCI indications in LMCAD management for whom are ineligible for CABG with complex coronary artery disease.
Incorporating rock pools in coastal guards, an eco-engineered approach to enhance biodiversity
Authors: Saeid Shirin , Nasrolahi Ali , Afzali Amin 
Published: September 2023

Abstract
Driven by growing human populations and climate change concerns, artificial coastal structures have become crucial for meeting population needs. However, these structures often differ from natural counterparts and undermine biodiversity. Integrating eco-engineering methods during their construction is, therefore, essential to counteract the negative impact on marine biodiversity. In this study, we incorporated rock pools of two different sizes to three distinct intertidal levels within a concrete block breakwater in Bandar Abbas, Iran, and conducted an in-situ assessment of their biota. A total of 17 taxa were identified, with the barnacle Amphibalanus amphitrite being the most prevalent species. The findings revealed a fivefold increase in cumulative species number and a 30% rise in abundance due to the presence of rock pools. The results of PERMANOVA indicated that both rock pool size and intertidal levels, along with their interaction, significantly influenced species richness. Notably, small rock pools within the low intertidal level exhibited the highest species richness and abundance, whereas larger rock pools situated in high intertidal levels displayed lower richness and abundance. Our investigation underscores the effectiveness of integrating rock pools as an ecological engineering approach to enrich biodiversity on human-made structures within intertidal zones. The selection of rock pool dimensions and tidal positioning should be thoughtfully determined, considering the prevailing environmental conditions and the project's objectives.
The Impact of mindfulness-based counseling on stress and anxiety before surgery in pregnant women with a history of cesarean section: A Controlled Interventional Study
Authors: Ansari Niloufar , Omidvar Shabnam , Azizi Alireza , Shirafkan Hoda , Mohsenzadeh-Ledari Farideh 
Published: September 2023

Abstract

Background
Stress and anxiety are difficult concepts in the preoperative care of pregnant women with a history of cesarean section and are associated with maternal complications.
Objectives
This study aimed to determine the impact of mindfulness-based counseling on the stress and anxiety of women with a history of cesarean section.
Methods
Using convenience sampling, the present study was a quasi-experimental pre-test and post-test design conducted on 134 women with a history of cesarean section. The women were randomly assigned to intervention (mindfulness-based counseling) and control groups. The intervention group received five 45-minute weekly mindfulness-based counseling over five weeks, led by the researcher via WhatsApp. Data were collected using a demographic information and the Spielberger anxiety, and Cohen's perceived stress Questionnaire before and after the intervention, completed by both groups. Data were analyzed using SPSS 22 statistical software.
Results
The mean latent anxiety scores the beginning and end of the study were(49.85 ± 7.47 vs 62.76 ± 5.14)in the control and (47.65 ± 10.35vs53.35 ± 5.92)in the intervention groups(P ≤ 0.001,MD=-31.41, %95CI:-32.80_-29.97 ,η2 = 0.93).The mean manifest anxiety scores the beginning and end of the study were (40.10 ± 7.67vs61.65 ± 4.82)in the control and(30.37 ± 3.81vs38.49 ± 6.79),in the intervention groups(P ≤ 0.001,MD=-31.79, %95CI:-34.23_ -29.35,η2 = 0.92). The mean stress scores the beginning and end of the study were(28.61 ± 6.20vs36.07 ± 4.83) in the control and (21.31 ± 7.67vs 27.85 ± 5.21) in the intervention groups (P ≤ 0.001, MD=-24.14, %95CI: -25.45_ -22.83, η2 = 0.91).
Conclusions
Considering the positive impact of mindfulness-based counseling on stress and anxiety, this approach can be used in preoperative care to reduce perceived stress and anxiety.
Clinical Trial Registration:
Not applicable we were not allowed to register according to the law of our country.
Five new hub genes that have an impact on the survival rate of adrenocortical carcinoma were discovered using a correlation network approach in a comprehensive meta-analysis
Authors: Jafari Zahra , Javadirad Seyed-Morteza 
Published: September 2023

Abstract
Identifying hub genes that contribute to the aggressiveness of adrenocortical carcinoma (ACC) is of the utmost importance. The GEO database found 14 microarray datasets for Homo sapiens, but some were excluded due to missing phenotype information, lncRNA expression, and treatment exposure. The study involved 171 human specimens, including 128 ACCs, 17 ACAs, and 26 normal adrenal cortex samples. Weighted correlation network analysis (WGCNA) was utilized to identify ACC hub genes and their differential expression was assessed with microarray meta-analysis. Survival analysis was conducted in two steps, with and without sex. The expression level of survival genes was compared between ACC stages, and the impact of TP53 gene mutations was assessed. Enrichment, coexpression, and network analyses were performed. The diagnostic and predictive potential of the genes was evaluated using single gene and multivariate regression analyses. It was discovered that twenty hub genes exhibited increased expression in both benign and malignant tissues. Moreover, a set of five genes demonstrated a significant correlation with ACC survival, namely DNAJC9, ATAD2, RFC4, GGH, and PCLAF. The genes GGH and RFC4 were recently discovered associated with ACC. Women with survival genes overexpression experienced earlier catastrophic deaths than men. Patients with TP53 mutations showed PCLAFand DNAJC9 overexpression. There was an association between increased RFC4gene expression and ACC tumor progression. Coexpression analysis substantiated the fact that survival genes exhibited a significant positive correlation. An analysis of the network revealed that RFC4 and ATAD2 were the most essential proteins. GGH had the greatest diagnostic potential for ACC and combining GGH, PCLAF, DNAJC9 and RFC4 led to an outstanding ACC diagnosis. A limitation of the study was the rarity of ACC tumors.
Country-wide, multi-location trails of Green Super Rice lines for yield performance and stability in Pakistan using genetic and stability parameters
Authors: Ahmed Muhammad Shahzad , Majeed Abid , Attia Kotb A. , Javaid Rana Arsalan , Siddique Faiza , Farooq Muhammad Shahbaz , Uzair Muhammad , Abushady Asmaa M. 
Published: September 2023

Abstract
Background: Rice (Oryza sativa L.) is an important member of the family Poaceae and more than half of world population dependent for their dietary nutrition on rice. Rice cultivars with high yield, resilient to stresses and wider environmental adoptability are essential to ensure the yield stability and food security. The fundamental objective of this study was to identify yielding rice genotypes with stability performance and wider adoptability in a rice growing areas in Pakistan.
Methodology & Results: A triplicate RCBD design experiment containing 20 Green Super Rice (GSR) advanced lines was conducted at 12 rice growing ecologies in four Provinces in Pakistan. Grain yield stability performance was assessed by using mean performance, analysis of variance (ANOVA), genetic components (genotypic, phenotypic, environmental variances and heritability), univariate and multivariate statistics i.e. regression coefficient, AMMI stability value, AMMI stability index, Wricke’s Ecovalence, Shukla’s Stability Variance and Weighted Average of Absolute Score, AMMI model and GGE biplot analysis respectively. Analysis of variance revealed significant differences among genotypes, locations, and G x E interaction for mean squares (p < 0.05) of PH, NT, PL, GPP, TGW and PY. all the traits except NT revealed higher genotypic variance than environmental variance. Broad sense heritability was estimated in the range of 44.36% to 98.60%. Based on ASV, ASI, bi, Wi2, σ2i and WAAS statistics, the genotypes G1, G4, G5, G8, G11 and G12 revealed lowest values for parametric statistics and considered more stable genotypes on the bases of paddy yield. The additive main effects and multiplicative interaction (AMMI) model revealed significant variation (p< 0.05) for genotypes and non-signification for environment and highly significant for G × E interaction. The variation proportion of PC1 and PC2 from interaction revealed 67.2% variability for paddy yield. Based on ‘mean verses stability analysis of GGE biplot’, ‘Which-won-where’ GGE Biplot, ‘discriminativeness vs. representativeness’ pattern of stability, ‘IPCA and WAASB/GY’ ratio-based stability Heat-map, and ranking of genotypes, the genotypes G1, G2, G3, G5, G8, G10, G11 and G13 were considered best performing and stable genotypes with yield potential more than 8 tons ha-1. Discriminativeness vs. representativeness’ pattern of stability identifies two environments, E5 (D.I Khan, KPK) and E6 (Usta Muhammad, Baluchistan) were best suited for yield performance.
Conclusions: Based on these findings we have concluded that the genotypes (G1, G2, G3, G5, G8, G10, G11 and G13) can be recommended for commercial variety development process and future breeding program.
Implementing routine paediatric height/length and weight screening and weight management advice by clinicians: An evaluation
Authors: Krstic Slavica , Dennis Sarah , Southcombe Faye , Denney-Wilson Elizabeth 
Published: September 2023

Abstract
OBJECTIVE: To determine the views of health care professionals(HCPs) in South Western Sydney Local Health District (SWSLHD) about the effectiveness of implementation strategies used to increase routine height/length and weight screening, advice, and referral for children and adolescents. A secondary aim was to explore the prevalence of weight bias among HCPs.
METHODS: A questionnaire was sent to all HCPs who had undertaken online or face-to-face training between December 2018 and June 2020 in SWSLHD (n=840). The questionnaire collected data on their experience of routine height and weight screening and the effectiveness of strategies used in the implementation. It also included a weight bias assessment. Data were provided by the NSW Ministry of Health on the performance of routine height/length and weight measures entered into the electronic medical records (eMR) in SWSLHD.
RESULTS:  Of the 840 questionnaires sent, 87 were undeliverable; of the remaining 753, 285 were returned (38% response rate). More than half (53%, 151/285) of the participants were nurses. Most HCPs agreed that there was a need for routine screening and reported that education, training, and access to resources were the most helpful implementation strategies. Most HCPs were confident in performing routine screening but were less confident in raising the issue of weight with children and their families. Barriers to implementation were lack of time, equipment, appropriate clinical setting, and HCPs’ perceptions and beliefs about obesity.
CONCLUSION: Routine screening is the first step in identifying children and adolescents at risk of overweight and obesity, but many HCP found it challenging to incorporate into daily practice. Multifaceted strategies are effective in increasingroutine screening across diverse healthcare settings so that children and adolescents receive timely and appropriate intervention.
Advancing SSP-aligned Scenarios of Shipping Toward 2050
Authors: Kramel Diogo , Franz Sebastian Marco , Klenner Jan , Muri Helene , Münster Marie , Strømman Anders Hammer 
Published: September 2023

Abstract

The wide range of projections for shipping poses a challenge for modeling the sector in Integrated Assessment Models (affecting how attainable decarbonization is in the sector) and Earth System Models (impacting the climate contribution of shipping emissions). This study explores an approach to develop spatially explicit energy demand projections for shipping in alignment with the Shared-Socioeconomic Pathways framework and IAM projections of global fossil fuel demand. Our results show that shipping could require between 14.4EJ and 20EJ by 2050, corresponding to a 3% and 44% increase from 2018 for SSP1 and SSP3 scenarios. Furthermore, the energy projections we present in this publication can be combined with different fuel mixes to derive emission inventories for climate modeling and, thus, better understanding the challenges in mitigating emissions for shipping. Through that, we aim to present a framework to incorporate detailed spatial shipping inventories and increase transparency for the scientific community.
Towards Generalist Foundation Model for Radiology
Authors: Xie Weidi , Wu Chaoyi , Zhang Xiaoman , Zhang Ya , Wang Yanfeng 
Published: September 2023

Abstract
In this study, we aim to initiate the development of Radiology Foundation Model, termed as RadFM.We consider the construction of foundational models from the perspectives of dataset construction, model design, and thorough evaluation. Our contribution can be concluded as follows: (i), we construct a large-scale Medical Multi-modal Dataset, MedMD, which consists of 16M 2D and 3D medical scans with high-quality text descriptions or reports across various data formats, modalities, and tasks, covering over 5000 distinct diseases. To the best of our knowledge, this is the first large-scale, high-quality, medical visual-language dataset, with both 2D and 3D scans; (ii ), we propose an architecture that enables visually conditioned generative pre-training, i.e., allowing for integration of text input with 2D or 3D medical scans, and generate responses for diverse radiologic tasks. The model was initially pre-trained on MedMD and subsequently fine-tuned on the domain-specific dataset, which is a radiologic cleaned version of MedMD, containing 3M radiologic visual-language pairs, termed as RadMD; (iii), we propose a new evaluation benchmark, RadBench, that comprises five tasks, including modality recognition, disease diagnosis, visual question answering, report generation and rationale diagnosis, aiming to comprehensively assess the capability of foundation models in handling practical clinical problems. We conduct both automatic and human evaluation on RadBench, in both cases, RadFM significantly outperforms existing multi-modal foundation models. The codes, data, and model checkpoint will all be made publicly available to promote further research and development in the field.
Epigenetic analysis on RUNX3 mislocalization and its association with tumor microenvironment alteration in non-small cell lung cancer
Authors: Deng Yujie , Liu Weibin , Lin Mingqiang , Huang Chuanzhong , Shi Yi , Lu Jianping , Zheng Xinlong , Zhu Weifeng , Liu Tao , Zhang Longfeng , Chen Xiaohui 
Published: September 2023

Abstract
To investigate the epigenetic characteristics and tumor microenvironment status that might probably underlie RUNX3 mislocalization in NSCLC. Epigenetic markers, PD-L1 and CD3/8 were assessed in TMA and TCGA datasets. Methylation level at RUNX3 promoter was assessed via pyrosequencing. RNA-seq assays were performed. NSCLC patients’ survival with different patterns of RUNX3 expression was determined. Among NSCLC with RUNX3 negative, nuclear, cytoplastic and whole-cell expression, epigenetic markers differed significantly (all P<0.05). No difference on PD-L1 expression level or CD8/CD3 ratio existed in 4 or 2 RUNX3 distribution patterns (both P>0.05), as was verified in TCGA database. Pyrosequencing indicated higher methylation level on CpG1/2 would result in low RUNX3 expression, as was also associated with higher probability of local relapse (both P<0.05). RNA-Sq showed that the DEGs were primarily enriched in biological processes associated with tumor metastasis, like MMP11. Survival analysis demonstrated no survival discrepancy in various RUNX3 expression patterns of any stages (all P>0.05). No difference in TME markers were determined, either. Various RUNX3 expression patterns might in part result from different status of epigenetic alteration. RNA-Sq revealed that its expression might connect to genes associated with EMT or distant metastasis, and higher RUNX3 promoter methylation was correlated with local relapse.
Patern Formation and Diffusion-Driven Instability of a Modified Lengyel-Epstein Model
Authors: MEYVACI Müge , MERDAN Hüseyin , Yafia Radouane 
Published: September 2023

Abstract
We consider a modified Lengyel-Epstein model that is covered by a system of reaction diffusion equations and investigate the sufficient conditions on parameters of the model at which the diffusion driven instability occurs. We perform numerical simulations to support and extend the theoretical findings. Analytical results and numerical simulations show that the modified Lengyel-Epstein system with positive initial and non-flux boundary conditions presents Turing patterns under some conditions on its parameters.
Lengyel–Epstein system
2008 MSC: 35K57, 35K50, 92D25, 92C15 (2000 is the default)
Patients with secondary t-AML patients with TP53 Arg72Pro and SH2B3 W262R: A case report and review of the literature
Authors: Liu Yalu , Yue Ting 
Published: September 2023

Abstract
Background:
The incidence of therapy-related acute myeloblastic leukemia (t-AML) has increased in recent years owing to advances in tumor treatment. Compared to de novo AML, patients with t-AML have a poorer response to treatment and shorter overall survival. Genetic variants are associated with the risk of developing t-AML.
Case presentation: In this study, we report two cases of t-AML following treatment for diffuse large B-cell lymphoma. All the patients had previously undergone stem cell transplantation and high-dose chemotherapy. The time interval between the initial diagnosis and the onset of t-AML varied from 15 to 21 months. TP53 SNP rs1042522 and SH2B3 W262R polymorphisms were detected at baseline in both patients.
Conclusions: Based on the present findings and a review of the literature, we propose that patients with the GG and GC genotypes of the SNP rs1042522 and SH2B3 W262R polymorphisms may be at a higher risk of developing t-AML.