bluuebunny/crossref_metadata_2025_split huggingface dataset:
Histologic tumor type as a determinant of survival in hormone receptor-positive, HER2-negative, pT1-3 invasive ductal and lobular breast cancer
Authors: Göker Menekse , Denys Hannelore , Hendrix An , de Wever Olivier , de Vijver Koen Van , Braems Geert 
Published: July 2022

Abstract
Purpose
The aim of the study was to compare the difference in survival between invasive ductal (IDC) and lobular carcinoma (ILC).
Methods
Data of patients (n = 1843) with a hormone receptor-positive, HER2-negative, pT1-3 IDC or ILC cancer without distant metastasis, treated at the Ghent University Hospital over the time period 2001–2015, were analyzed.
Results
ILC represented 13.9% of the tumors, had a higher percentage of pT3 and pN3 stages than IDC, lymphovascular space invasion (LVSI) was less present and Ki-67 was mostly low. 73.9% of ILCs were grade 2, whereas IDC had more grade 1 and grade 3 tumors. Kaplan-Meier curves and log-rank testing showed a significant worse DFS for ILC with pN ≥ 1 than for their IDC counterpart. In a multivariable Cox regression analysis the histologic tumor type, ductal or lobular, was a determinant of DFS over 120 months (IDC as reference; hazard ratio for ILC 1.77, 95% CI 1.08–2.90) just as the ER Allred score (hazard ratio 0.84, 95% CI 0.78–0.91), LVSI (hazard ratio 1.75, 95% CI 1.12–2.74) and pN3 (hazard ratio 2.29, 95% CI 1.03–5.09). Determinants of OS over ten years were age (hazard ratio 1.05, 95% CI 1.02–1.07), LVSI (hazard ratio 3.62, 95% CI 1.92–6.82) and the ER Allred score (hazard ratio 0.80, 95% CI 0.73–0.89).
Conclusion
The histologic tumor type, ductal or lobular, determines DFS in hormone receptor-positive, HER2-negative, pT1-3 breast cancer besides the ER Allred score, LVSI and pN3.
Rethinking Regularization with Random Label Smoothing
Authors: Santos Claudio Filipi Goncalves dos , Papa Joao Paulo 
Published: July 2022

Abstract

Regularization helps to improve machine learning techniques by penalizing the models during training. Such approaches act in either the input, internal, or output layers. Regarding the latter, label smoothing is widely used to introduce noise in the label vector, making learning more challenging. This work proposes a new label regularization method, Random Label Smoothing, that attributes random values to the labels while preserving their semantics during training. The idea is to change the entire label into fixed arbitrary values. Results show improvements in image classification and super-resolution tasks, outperforming state-of-the-art techniques for such purposes.
Association between depressive symptoms and all- cause mortality in Chilean adult population: prospective results from the National Health Survey
Authors: Luna Eliazar , Pikhart Hynek , Peasey Anne 
Published: July 2022

Abstract
Purpose
Depression is a prevalent disorder with effects beyond mental health. An association with mortality has been reported, however, evidence is mixed and limited to a few high-income countries. This study aims to assess the association between depressive symptoms and all-cause mortality in the Chilean population.
Methods
This prospective study used data from the Chilean National Health Survey (ENS). Data from 3,151 and 3,749 participants from the 2003 and 2010 ENS respectively were linked to mortality register data. Cox survival analysis was performed using days from interview as time-to-event. The main exposure was depressive symptoms, measured with CIDI-SF (cut-off ≥ 5), and the outcome was all-cause mortality. The study period was limited to 8.5 years to allow for the same length of follow-up in both cohorts.
Results
10% and 8.5% of participants from the 2003 and 2010 cohort died during the follow-up. Adjusting for age and sex, those with depressive symptoms were 1.50 (95% CI 1.11–2.02) and 1.51 (95% CI 1.11–2.04) times more likely to die than those without symptoms in the 2003 and 2010 cohort, respectively. In fully adjusted models, participants with depressive symptoms were 1.38 (95% CI 1.02–1.86) and 1.38 (95% CI 1.02–1.88) times more likely to die compared to those without symptoms in the 2003 and 2010 cohort.
Conclusion
Addressing mental health in the Chilean population could contribute not only to healthier but longer lives as well. Future research should collect data on more points in time to assess the effect of trajectories of depressive symptoms on mortality.
Impaired Robotic Surgical Visualization: Archaic Issues in a Modern Operating Room
Authors: Venkatayogi Nethra , Uecker John , Laviana Aaron A , Cohen Alexander , Belbina Safiya-Hana , Gereta Sofia , Idelson Christopher , Alambeigi Farshid 
Published: July 2022

Abstract
Background
While Robotic-Assisted Surgery (RAS) has been revolutionizing surgical procedures, it has various areas needing improvement, specifically in the visualization sector. Suboptimal vision due to lens occlusions has been a topic of concern in laparoscopic surgery but has not received much attention in robotic surgery. This study is the first to explore and quantify the degree of disruption encountered due to poor robotic visualization at a major academic center.
Methods
In case observations across 21 RAS procedures in various specialties, any lens occlusions or “debris” events that appeared on the monitor displays and clinicians’ reactions, the cause, and the location across the monitor for these events were recorded. Data was then assessed for any trends using analysis as described below.
Results
From around 32 hours of RAS observation time, 124 debris events were recorded. 58.7% of case observation time was spent under a compromised visual field (p = 0.037). In a subset of 8 cases, about 1.4% of the average observation time was spent cleaning the lens. Additionally, cautery was found to be the primary cause of lens occlusions and little variation was found within the spread of the debris across the monitor display.
Conclusions
This study illustrates that in 6 (29%) of the cases, 90% of the observation time was spent under compromised visualization while only 9.5% of the cases had no debris or cleaning events. Additionally, cleaning the lens can be troublesome during the procedure, interrupting the operating room flow. This paper suggests areas for research and technological development.
WITHDRAWN: Hybrid Approach Based Power Quality Improvement In Smart Grid Connected Renewable Energy System Using Dstatcom: A Gbdt-Poa Technique
Authors: Rajam Yesuraj Zacharias , Retnamony Rajesh 
Published: July 2022

Abstract

A hybrid approach for distribution static compensator (DSTATCOM) based grid connected photovoltaic (PV) is proposed in this paper. The proposed approach is the hybrid combination of gradient boosting decision tree (GBDT) and Pelican Optimization Algorithm (POA) hence it is known as GBDT-POA approach. The major objective of the proposed approach is to reduce the fluctuation of the DC voltage and compensate the reactive power improves the power quality and extract the maximum power of the system. The peak power of the PV is extracted by using the GBDT approach. The DSTATCOM based Voltage Source Converter (VSC) control signal is provided by using the POA approach. The proposed system is effectively reduces the harmonics and increase the power of the system. By then the performance of the proposed approach is performed on the MATLAB platform and compared with existing approaches. The proposed approach is analyzed under two cases like constant irradiance with grid fault and variant irradiation. From the simulation, it is conclude that the proposed approach delivers the THD as 2.03% and increase the power quality.
Estimating the Seismic Pounding Force between Adjacent Buildings and Study the Effect of Gap Distance on Seismic Pounding
Authors: Tamer Kamel 
Published: July 2022

Abstract
Insufficient separation distance between adjacent buildings may lead to their pounding during strong earthquakes causing damage or local failure. Accordingly, most of the design codes specify a minimum separation or gap distance between adjacent buildings to prevent their seismic pounding. Main objectives of this study are study the seismic pounding between adjacent reinforced concrete buildings under various ground motions and study the effect of gap distance on seismic pounding. The studied buildings are modeled as two-dimensional frames to idealize the adjacent buildings. This study considers adjacent frame buildings having the same number of floors as well as frames having a different number of floors. Nonlinear finite element time history analysis is performed using ETABS commercial software. Three different real earthquake records with different characteristics are scaled and used to simulate ground motion. Nonlinear gap element is used to model pounding between buildings at their interface points. The results of the study indicate that, the maximum pounding force was investigated for each of the studied cases. Pounding does not occur between buildings having equal height. Increasing separation distance between buildings reduces the pounding force between them. Separation distance which estimated by the Egyptian code is conservative.
Theoretical study of CO adsorption on FexCuy(x+y=3) clusters and reactive activity of their carbonyl complexes
Authors: Zhang Jianhui , Leng Yanli , Liu Jing , Wang Huanjiang , Mu Hongmei 
Published: July 2022

Abstract
In this paper, the adsorption of CO on FexCuy (x + y = 3) clusters were studied by BPW91 method, all conceivable geometries and electronic states of carbonyl complexes were explored. The results show that bimetallic clusters tend to have higher stepwise CO adsorption energy than corresponding pure clusters, and the adsorption capacity of FeCu2(CO)3 with CO is substantially larger than that of other carbonyl complexes. Moreover, the frontier molecular orbital theory was used to analyze the effect of the second element in the ligand reactions, which also confirmed that the reactions of CO with bimetallic clusters are easier than that of pure cluster systems. Finally, the energy gaps of HOMO and LUMO were use to explore the reactive activity of carbonyl complexes, it was found that the bimetallic clusters are lower than that of the Fe3 or Cu3, and the Fe2Cu(CO)1 has lower energy gap than that of other carbonyl complexes. This suggests that it may be possible to tune bimetallic cluster to get higher activity carbonyl complexes in the reactions.
An End-to-End Deep Learning Proportional Hazard Regression Model for Prognosis in Patients with Colorectal Cancer: A Multi- modal and Multi-center Study
Authors: Pan Xiang , Cong He , Wang Xiaolei , Zhang Heng , Sun Heng , Ge Yuxi , Hu Shudong 
Published: July 2022

Abstract
Purpose
Survival analysis models of prognosis are extremely useful for colorectal cancer (CRC) patients as they can guide personalized precision medicine. Current survival models require extensive feature engineering depending on heuristic expertise and are not suitable for multi-modal and multi-center cases. We developed an end-to-end deep learning proportional hazards regression model (Deep-Surv) based on 3D convolution neural networks (CNN) and attention for predicting the prognosis of CRC patients.
Method
This study consisted of 564 exams of 282 patients with stage II-III CRC from two independent centers that were divided into a training dataset (Center1, 294) and a validation dataset (Center 2, 270), who underwent non-enhanced and enhanced CT before total resection from November 2011 to February 2019. We also developed clinical and radiomics models for comparison (composite model: CS; radiomics model: Radiomics-Surv). Furthermore, we compared the value of non-enhanced and/or enhanced CT as inputs for disease-free survival (DFS) prediction, respectively.
Results
The concordance index (C-index) of the Deep-Surv outperformed the CS, and the Radiomics-Surv (training, 0.84 vs 0.7 vs 0.63; validation, 0.76 vs 0.67 vs 0.62). In the training dataset, the Deep-Surv has best risk partitioning ability than the CS and Radiomics-Surv, which is further validated in the validation dataset (training: Hazard ratio [HR], 5.83 [95% Confidence intervals {CI}, 3.532–9.692], P < 0.0001; validation: HR, 3.63 [95% CI, 2.302–5.709], P < 0.0001).
Conclusions
Our study demonstrated that Deep-Surv is a powerful model of prognosis assessment and satisfies the need for a multi-modal, multi-center, standardized risk stratification system that advances the development of noninvasive precision medicine.
Depolymerization of robust polyetheretherketone to regenerate monomer units using sulfur reagents
Authors: Minami Yasunori , Matsuyama Nao , Takeichi Yasuo , Watanabe Ryota , Mathew Siby , Nakajima Yumiko 
Published: July 2022

Abstract
Super engineering plastics, high-performance thermoplastic resins such as polyetheretherketone (PEEK), and polyphenylene sulfide (PPS) have been utilized in industries, owing to their high thermal stability and mechanical strength. However, their robustness hinders their depolymerization to produce monomers and low-weight molecules. Presently, chemical recycling for most super engineering plastics remains relatively unexplored.
Herein, we report the depolymerization of insoluble PEEK using sulfur nucleophiles via carbon–oxygen bond cleavages to form benzophenone dithiolate and hydroquinone. Treatment with organic halides converted only the former products to afford various dithiofunctionalized benzophenones. The depolymerization proceeded as a solid–liquid reaction in the initial phase. Therefore, this method was not affected by the shape of PEEK, e.g., pellets or films. Moreover, this depolymerization method was applicable to carbon- or glass fiber-enforced PEEK material. The depolymerized product, dithiofunctionalized benzophenones, could be converted into diiodobenzophenone which is an active form of aromatic substitution reactions.
ERAP2 as a potential biomarker for predicting gemcitabine response in patients with pancreatic cancer
Authors: Yu Pian , Luo Shifu , Cai Jiaxin , Li Jie , Peng Cong 
Published: July 2022

Abstract
Background
Pancreatic cancer is one of the most malignant tumors, with rapid metastasis, high mortality rate, and difficult early screening. Currently, gemcitabine is a first-line drug for pancreatic cancer patients, but its clinical effect is limited due to drug resistance. It is particularly important to further identify biomarkers associated with gemcitabine resistance to improve the sensitivity of gemcitabine treatment.
Methods
Drug sensitivity data and the corresponding transcript data derived from the Genomics of Drug Sensitivity in Cancer (GDSC) database for correlation analysis was adopted to obtain genes related to gemcitabine sensitivity. Moreover, the survival model of pancreatic cancer patients treated with gemcitabine in The Cancer Genome Atlas (TCGA) database was utilized to obtain key genes. Multiple in vitro assays were performed to verify the function of the key biomarker.
Results
Endoplasmic Reticulum Aminopeptidase 2 (ERAP2) was identified as a biomarker promoting gemcitabine resistance, and its high expression resulted in a worse prognosis. Besides, gemcitabine significantly increased the mRNA and protein levels of ERAP2 in pancreatic cancer cells. Additionally, ERAP2 knockdown suppressed tumorigenesis and potentiated gemcitabine-induced growth, migration and invasion inhibition in human pancreatic cancer cells.
Conclusions
ERAP2 may be a novel key biomarker for gemcitabine sensitivity and diagnosis, thus providing an effective therapeutic strategy for pancreatic cancer treatment.
ROS generation and p-38 activation contribute to montmorillonite-induced corneal toxicity in vitro and in vivo
Authors: Liu Jia , Yang Shubin , Zhao Laien , Jiang Feng , Peng Shengjun , Zhao Ruikang , Huang Yanmei , Fu Xiaoxuan , Luo Rongrui , Jiang Yu , Li Zelin , Wang Nan , Fang Tengzheng , Zhang Zhuhong 
Published: July 2022

Abstract
Background
Montmorillonite (Mt) and its derivatives are now widely used in industrial and biomedical fields. Therefore, safety assessments of these materials are critical to protect human health after exposure; however, studies on the ocular toxicity of Mt are lacking. In particular, varying physicochemical characteristics of Mt may greatly alter their toxicological potential. To explore the effects of such characteristics on the eyes, five types of Mt were investigated in vitro and in vivo for the first time, and their underlying mechanisms studied.
Results
The different types of Mt caused cytotoxicity in human HCEC-B4G12 corneal cells based on analyses of ATP content, lactate dehydrogenase leakage, cell morphology, and the distribution of Mt in cells. Among the five Mt types, Na-Mt exhibited the highest cytotoxicity. Notably, Na-Mt and chitosan-modified acidic Na-Mt (C-H-Na-Mt) induced ocular toxicity in vivo, as demonstrated by increases corneal injury area and the number of apoptotic cells. Na-Mt and C-H-Na-Mt also induced reactive oxygen species (ROS) generation in vitro and in vivo, as indicated by 2′,7′-dichlorofluorescin diacetate and dihydroethidium staining. In addition, Na-Mt activated the mitogen-activated protein kinase signaling pathway. The pretreatment of HCEC-B4G12 cells with N-acetylcysteine, an ROS scavenger, attenuated the Na-Mt-induced cytotoxicity and suppressed p38 activation, while inhibiting p38 activation with a p38-specific inhibitor decreased Na-Mt-induced cytotoxicity.
Conclusions
The results indicate that Mt induces corneal toxicity in vitro and in vivo. The physicochemical properties of Mt greatly affect its toxicological potential. Furthermore, ROS generation and p38 activation contribute at least in part to Na-Mt-induced toxicity.
Modeling vaccine allocation and equity implications of COVID-19 containment strategies
Authors: Nakamoto Ichiro , Zhang Jilin 
Published: July 2022

Abstract
Given the shortage of global COVID-19 vaccines, a critical public concern is whether the strategy of allocation exerts a heterogeneous effect on settings that have imbalanced accessibility. Exacerbated by the mutational characteristics of the pathogen, traits of immunity protection of vaccines, and diversification of human behaviors, the pathway to the full eradication of the COVID-19 pandemic is becoming increasingly complicated and indeterminate. Population-wide evaluation of public interventions remains crucial to evaluate the performance of epidemiology policies. This study employ a mathematical compartmental model to examine the potential effect of vaccine allocation on the trajectory of COVID-19 transmission and the elicited equity implications. The outcomes imply that allocation strategies substantially impact the cumulative equilibrium size of a pandemic controlling for confounding factors. Under a framework of a two-dose primary vaccination strategy aiming to curb the total infections for high-accessibility settings (HAS) and low-accessibility settings(LAS), the traits of vaccination, pathogen, and human effort integrally affect the equilibrium of the COVID-19 pandemic in the medium perspective (i.e., up to 5 years). Vaccine allocation increases the healthcare and cost burden for HAS temporarily, in contrast, it reduces the risk of COVID-19 transmission for the LAS. The effects are consistent across a variety of profiles. By enhancing the administration rates of primary doses (i.e., mainly through dose 1 and dose 2), the magnitude of the COVID-19 pandemic decreases contingent on confounding factors. To minimize the magnitude of infection, it is of importance to dynamically monitor the immunity protection of vaccines, the dynamics of virus transmission, and the gap in the human effort.
Earl Grey: a fully automated user-friendly transposable element annotation and analysis pipeline
Authors: Baril Tobias , Imrie Ryan M. , Hayward Alex 
Published: July 2022

Abstract
Background
Transposable elements (TEs) are found in nearly all eukaryotic genomes and are implicated in a range of evolutionary processes. Despite considerable research attention on TEs, their annotation and characterisation remain challenging, particularly for non-specialists. Current methods of automated TE annotation are subject to several issues that can reduce their overall quality: (i) fragmented and overlapping TE annotations may lead to erroneous estimates of TE count and coverage; (ii) repeat models may represent small proportions of their total length, where 5’ and 3’ regions are poorly captured; (iii) resultant libraries may contain redundancy, with the same TE family represented more than once. Existing pipelines can also be challenging to install, run, and extract data from. To address these issues, we present Earl Grey: a fully automated transposable element annotation pipeline designed for the user-friendly curation and annotation of TEs in eukaryotic genome assemblies.
Results
Using a simulated genome, three model genome assemblies, and three non-model genome assemblies, Earl Grey outperforms current widely used TE annotation methodologies in ameliorating the issues mentioned above by producing longer TE consensus sequences in non-redundant TE libraries, which are then used to produce less fragmented TE annotations without the presence of overlaps. Earl Grey scores highly in benchmarking for TE annotation (MCC: 0.99) and classification (97% correctly classified) in comparison to existing software.
Conclusions
Earl Grey provides a comprehensive and fully automated TE annotation toolkit that provides researchers with paper-ready summary figures and outputs in standard formats compatible with other bioinformatics tools. Earl Grey has a modular format, with great scope for the inclusion of additional modules focussed on further quality control aspects and tailored analyses in future releases.
The efficacy of percutaneous cholecystostomy in patients with acute cholecystitis before and during the COVID-19 pandemic. Is the percutaneous cholecystostomy procedure safe for patients and healthcare professionals in pandemic conditions?
Authors: Topal Ümmihan , Sönmez Süleyman , Dağistanlı Sevinç 
Published: July 2022

Abstract
Purposes: The purpose of the present paper was to prove the efficacy of Percutaneous Cholecystostomy (PC) in the treatment of patients with Acute Cholecystitis (AC) before the COVID-19 pandemic and especially during the pandemic, and to show that it is a safe procedure for patients and healthcare professionals.Materials and Methods: The demographic data of the patients with AC who applied to our hospital, who underwent PC procedure in the 24-month and 12-month period before and during the pandemic, clinical and laboratory data, technical success of PC, clinical response to treatment, length of hospital stay, one-month postprocedural observation, and complications were compared.Results: PC was applied to a total of 124 patients in the pre-pandemic period (52) and pandemic period (72) examined in the study. The median age was 73.5 (25–93) in the pre-pandemic period, and 64 (23–90) in the pandemic period, and the difference between these was found to be significant (p = 0.004). Clinical improvement due to PC was detected in 43 (86%) patients in the pre-pandemic period, and in 61 (84.7%) patients in the pandemic period, no significant differences were detected between the two groups (p = 1.000). The day of hospitalization median value was 3 (1–18) days in pandemic period, and 3 (1–30) days in the pandemic period, and no significant differences were detected between the groups (p = 0.794).ConclusionPC treatment in patients with AC during the pandemic andpre-pandemicc period is effective and safe for both the patient and the healthcare professionals who perform the procedure.The efficacy of percutaneous cholecystostomy in patients with acute cholecystitis before and during the COVID-19 pandemic. Is the percutaneous cholecystostomy procedure safe for patients and healthcare professionals in pandemic conditions?