bluuebunny/crossref_metadata_2025_split huggingface dataset:
Optimize Data-Driven Multi-Agent Simulation for COVID-19 Transmission
Authors: Jin Chao , Zhang Hao , Yin Ling , Zhang Yong , Feng Sheng-zhong 
Published: March 2022

Abstract
Background:
Multi-Agent Simulation is an essential technique for exploring complex systems. In researches of contagious diseases, it is widely exploited to analyze their spread mechanisms, especially for preventing COVID-19. Nowadays, transmission dynamics and interventions of COVID-19 have been elaborately established by this method, but its computation performance is seldomly concerned. As it usually suffers from inadequate CPU utilization and pour data locality, optimizing the performance is challenging.

Results:
This paper explores approaches to optimize multi-agent simulation for COVID-19 disease. The focus of this work is on the algorithm and data structure designs for improving performance, as well as its parallelisation strategies. We propose two successive methods to optimize the computation. We construct a case-focused iteration algorithm to improve data locality, and create a thread-safe data-mapping paradigm called hierachical hash table to accelerate hash operations.

Conclusions:
Our performance results demonstrate capabilities of these methods exhibiting significant improvements of system performance. The case-focused method degrades $\sim 90 \%$ cache references and achieves $\times 4.3$ speedup. Hierachical hash table can further boost computation speed by 47\%. And parallel implementation with 20 threads on CPU achieves $\times 81$ speedup consequently.
A Seven-Year Surveillance of Epidemiological Trends of Serratia Marcescens with Different Infection Types in a Tertiary Hospital in China
Authors: Zhu Qingtang , Chen Caiyun , Ge Zijun , Zang Feng , Zhang Yongxiang , Liu Bo 
Published: March 2022

Abstract
Objective: To explore the trend of detection and antimicrobial resistance of Serratia marcescens with different infection types for 7 consecutive years, to provide a reference for future studies for the control of S. marcescens infections and a rational selection of antibiotics.Methods: S. marcescens isolates were collected from 2014 to 2020, and the trend of detection and antimicrobial resistance were analyzed according to different types of infection.Results: For 7 consecutive years, the data showed that patients with S. marcescens infections were mainly from the intensive care unit (ICU) (384 isolates, 40.98%), and the isolates recovered were mainly from sputum samples (743 isolates, 79.30%). The number of isolated strains increased every year, and the average rate of detection ranged from 0.60% to 0.80%. The detection rate of S. marcescens with hospital-acquired infections (HAI) showed a downward trend and that of S. marcescens with colonization showed an upward trend. The detection rate of multidrug-resistant S. marcescens fluctuated between 8.33%–16.89%. The resistance rate of S. marcescens to piperacillin was 17.0%–29.06% and the resistance rate to piperacillin tazobactam was 2.95%–13.13%. For cephalosporin antibiotics, the resistance rates of S. marcescens to cefuroxime and cefazolin were >99% and the resistance rates to ceftazidime and cefepime were <13%. The resistance rate of S. marcescens to aminoglycoside antibiotics, especially amikacin, was the lowest. The resistance rate of S. marcescens with community-acquired infections (CAI) to carbapenems was higher than that with HAI and colonization.Conclusion: The different infection types of S. marcescens have different detection and epidemic trends. In addition, resistance to carbapenems is different across the strains.
TMEM205 Reduces the Sensitivity of Gastric Cancer to Cisplatin Through TAM/M2 Polarization
Authors: Wu Xuwei , Meng Ziqi , Zhang Rui , Zhang Meihua , Piao Zhengri , Jin Tiefeng 
Published: March 2022

Abstract
Cisplatin (DDP) is a basic chemotherapy drug for gastric cancer (GC). With the increase of DDP drug concentration in clinical treatment, cancer cells gradually became resistant. Therefore, it is necessary to find an effective therapeutic target to enhance the sensitivity of GC to DDP. Transmembrane protein 205 (TMEM205) plays significant roles in DDP resistance, but the specific mechanism of TMEM205 in DDP-resistant GC has not been studied. Databases showed that TMEM205 overexpresses in GC. In vitro results showed that TMEM205 enhances proliferation, stemness, epithelial-mesenchymal transition (EMT) process, migration and angiogenesis of SGC-7901/DDP cells by activating the Wnt/β-catenin signaling pathway. In addition, TMEM205 promotes GC progression by inducing M2 polarization of tumor-associated macrophages (TAMs). These results suggest that TMEM205 may be an effective target to regulate the sensitivity of GC to DDP, providing a new therapeutic direction for clinical treatment.
Associations of Serum Phosphorus Concentrations with Insulin Resistance and Hyperandrogenemia in Normal Weight Women with Polycystic Ovary Syndrome
Authors: Wu Xiao-ke , Zhang Shi-ke , He Hui , Wang Yu , Li Jian , Gao Jing-shu , Cong Jing , Feng Jia-xing , Zhu Meng-yi 
Published: March 2022

Abstract
Purpose: Serum phosphorus is reported to be associated with insulin resistance (IR) and testosterone in many populations. However, studies exploring the role of serum phosphorus in polycystic ovary syndrome (PCOS) patients are rare. Thus, we aimed to investigate the associations of serum phosphorus concentrations with IR and hyperandrogenemia (HA) in women with PCOS.Methods: This was a secondary analysis of a multicenter and large-sample clinical trial including 1000 PCOS subjects diagnosed by the modified Rotterdam criteria. A total of 508 normal-weight PCOS patients with available serum phosphorus data were enrolled in the present study. Serum phosphorus, metabolic indices, and total testosterone (TT) concentration were measured. IR status was defined by a homeostasis model assessment of insulin resistance (HOMA‐IR) ≥ 2.69, and HA status was defined as a TT level ≥ 1.67 nmol/L. Multivariable linear regression and logistic regression models were used to evaluate the associations of serum phosphorus with IR and HA.Results: Multiple linear regression analysis showed that the serum phosphorus concentration was inversely correlated with fasting plasma glucose (FPG), fasting insulin (FIN), HOMA‐IR, and TT (P trend < 0.05 for all) after adjusting for confounding factors. Logistic regression showed that the serum phosphorus concentration was negatively correlated with IR and HA status. The multivariable-adjusted odds ratios with 95% confidence intervals for IR and HA status for the lowest vs. the highest quartiles of serum phosphorus were 2.26 (1.17-4.35, P trend = 0.009) and 2.58 (1.48–4.51, P trend = 0.002), respectively. Conclusion: Our results demonstrated that lower serum phosphorus concentrations were associated with higher risk of IR and worsened HA in normal-weight women with PCOS.
Intervention programs targeting the mental health, professional burnout, or wellbeing of school teachers: A systematic review and meta-analyses
Authors: Beames Joanne , Spanos Samantha , Roberts Anna , McGillivray Lauren , Li Sophie , Newby Jill , O'Dea Bridianne , Werner-Seidler Aliza 
Published: March 2022

Abstract
This paper outlines a systematic review and meta-analyses to identify, describe, and evaluate randomised and non-randomised controlled trials of psychological programs targeting the mental health, professional burnout, or wellbeing of school classroom teachers. Eighty-two unique studies were identified for inclusion in the review, and of those 39 were included in the meta-analyses (19 randomised controlled trials). In randomised controlled trials, the programs examined had significant large effects on stress (g=1.16), and moderate effects on burnout (g=0.58) and wellbeing (g=0.68). In non-randomised controlled trials, programs had significant moderate effects on stress (g=0.62), and small to moderate effects on anxiety (g=0.42), depression (g=0.36), and wellbeing (g=0.44). Studies were heterogeneous in design and methodological quality was generally poor, particularly in non-randomised controlled trials. There was an inadequate number of comparisons to perform sub-group analyses, meta-regression, or publication bias analyses. Most of the programs examined required significant time, effort, and resources to deliver and complete. These programs may not translate well outside of research trials to real-world contexts due to teachers being time poor. Priorities for research include using methodologically rigorous designs, developing programs for teachers with teachers (i.e., co-design), and considering implementation factors to ensure feasibility, acceptability, and uptake. Systematic Review Registration Number: PROPSERO - CRD42020159805.
Does the regulatory effect of vitamin D allow to reduce the cisplatin dose in T24 bladder cancer cell line?
Authors: Özgen Özge , Eroğlu Güneş Özen , Akdeniz Nilgün , Hepokur Ceylan , Kuruca Serap , Yaylım İlhan 
Published: March 2022

Abstract
1,25(OH)2D3 (Calcitriol, active form of Vitamin D), which is a broad regulatory molecule, plays a role in changing the efficacy of chemotherapeutic drugs. In bladder cancer, effectiveness of the treatment and reducing the resistance to chemotherapeutics such as cisplatin are of great importance. Cisplatin usage is one of a current standard chemotherapy regimen for bladder cancer. In our study T24, ECV-304 and HUVEC cell lines were treated with calcitriol and cisplatin individually and with combination. MTT assays were used for optimal dose determination. It was aimed to determine the possible potential of the combined use of cisplatin with calcitriol. Determined doses and combination treatments of calcitriol and cisplatin on all cell lines were evaluated for cytotoxicity, apoptosis and drug resistance. Also calcitriol and cisplatin interaction with p53 protein was assessed by molecular docking analysis. Datas showed that combination treatment increased the anti-proliferative efficacy compared to cisplatin alone (p=0.0108) in T24 cells. Also it reduced the cytotoxicity in the HUVEC compared to cisplatin alone (p< 0.0001). Combination treatment achieved slightly higher apoptosis rate in T24 cells than treatment of cisplatin alone (p=0.0005). It was determined that the rate of apoptosis and P-gp levels did not change significantly in the ECV-304 cells. However it decreased in HUVEC healthy control cell line (p=0.0082). P-gp ratios were increased in HUVEC (p < 0.0001) and decreased in T24 cells (74.47% p<0.0001) compare to control. The data obtained in this study show that the combination of calcitriol and cisplatin allows the use of cisplatin at lower doses.
Evaluation of Auto-segmentation for External Radiotherapy Planning Structures:A Part of Deep Learning Based Workflow in Cervical Cancer
Authors: Wang Jiahao , Chen Yuanyuan , Xie Hongling , Luo Lumeng , Tang Qiu 
Published: March 2022

Abstract
Objective:Deep learning (DL) based approach aims to construct a full workflow solution for cervical cancer with external radiotherapy (EBRT) and brachytherapy (BT).The purpose of this study was to evaluate the accuracy of EBRT planning structures derived from DL based auto-segmentation which would be a part implemented in the workflow of cervical cancer.Methods:Clinical target volumes (CTVs) and organs at risk (OARs) of 75 cervical cancer patients were manually delineated by senior radiation oncologists and auto-segmented by DL based method.The accuracy of DL based auto-segmented contours were evaluated using geometric and dosimetric metrics including dice similarity coefficient (DSC),95%hausdorf distance (95%HD),jaccard coefficient (JC) and dose-volume index (DVI).The correlation between geometric metrics and dosimetric difference was performed by Spearman’s correlation analysis. Results:The DL based auto-segmentation generated similar geometric performance in right kidney,left kidney,bladder,right femoral head and left femoral head with mean DSC of 0.88-0.93,95%HD of 1.03-2.96mm and JC of 0.78-0.88. Wilcoxon’s signed-rank test indicated significant dosimetric differences between manual and DL based auto-segmentation in CTV,spinal cord and pelvic bone (P<0.001). A strong correlation between the mean dose of pelvic bone and its 95%HD (R=0.843, P=0.000) was found in Spearman’s correlation analysis, and the remaining structures showed weak link between dosimetric difference and all of geometric metrics.Conclusion:Auto-segmentation achieved a satisfied agreement for most EBRT planning structures,although the dosimetric consistency of CTV was a concern. DL based auto-segmentation was an essential component in cervical cancer workflow which would generate the accurate contouring.
Warming-induced increase in carbon uptake leads to earlier spring phenology
Authors: Gu Hongshuang , Qiao Yuxin , Xi Zhenxiang , Rossi Sergio , Smith Nicholas , Liu Jianquan , Chen Lei 
Published: March 2022

Abstract
Under global warming, advances in spring phenology due to rising temperatures have been widely reported. However, the physiological mechanisms underlying the warming-induced earlier spring phenology remain poorly understood. Here, using multiple long-term and large-scale phenological datasets between 1951 and 2018, we show that warmer temperatures during the previous growing season led to earlier spring phenology in the Northern Hemisphere, with an average advancement of 2.5 days °C− 1. Correspondingly, we observed an earlier spring phenology with the increase in photosynthesis of previous growing season. Furthermore, we found a significant decline in the advancing effect of warming in previous growing season on spring phenology from cold to warm periods. These findings reveal that the observed warming-induced earlier spring phenology is driven by increased photosynthetic carbon assimilation in the previous growing season, while the slowdown in the advanced spring phenology may arise from decreased carbon assimilation when warming exceeds optimal temperatures for photosynthesis. Therefore, the vital role of warming-induced changes in carbon assimilation should be considered to accurately project spring phenology and carbon cycling under future climate warming conditions.
A study of Human pupil orbit model estimation method for the eye-gaze tracking.
Authors: Lee Seung Bong , Jeong Jae Hoon , Kim Dae Chang , Kim Sung Min 
Published: March 2022

Abstract
Background: Eye tracking is a technology that detects the direction of the user's gaze in real time. This technology is used in various fields such as analyzing user emotions and behaviors by analyzing the length of time the gaze stays in a specific direction or the path of movement. Recently, Eye-gaze tracking is a popular to a non-contact interaction technique for the minimization of covid-19 infection. A study conducted in the past have a limitation in that the ocular rotational center point (ORCP) cannot be found in common. For this reason, each research is continuously researching to overcome this problem by using various sensors, structures, and phenomena. In spite of, a tiny movement of the subject cause an error in accuracy during the process of Eye-gaze tracking. In this paper, we propose a novel method for Eye-gaze tracking under the condition of photographing the front of the face using a camera. We named this position set as Human pupil orbit model (HPOM) and it can express as a spherical equation because it looks like a sphere in 3-dimensional coordinate.Results: A simulation experiment was performed to confirm the performance of the proposed method. The error of HPOM estimation appears under 1 pixel in the first experiment both ORCP and a radius. In addition, it was confirmed that the process of estimating HPOM can be conducted as a real time in the second experiment.Conclusions: The proposed method was able to overcome the common problem of existing studies that could not find the rotational center of an eye-ball. In addition, HPOM may be secured in real time even if the subject moves.
Arterial Chemoembolization For Patients With Hepatocellular Carcinoma And Elevated Lactate Dehydrogenase Is Associated With Low Survival: A Cohort Study
Authors: Zhuang Genghui , Xie Yuping , Hong Junfeng , Lin Shan , Chen Tingting , Fang Wenzheng 
Published: March 2022

Abstract
Purpose: Serum lactate dehydrogenase (LDH) concentration has been used for the evaluation and prediction of prognosis of several tumors, including hepatocellular carcinoma (HCC). However, the relationship between changes in LDH after treatment (ΔLDH) and prognosis is still unclear. Herein, we aimed to determine this association in patients with HCC.Methods: Multivariate adjusted hazard ratios (HRs) and 95% confidence intervals (95%CIs) for HCC were obtained by Cox proportional hazard regression models. As for ΔLDH and overall survival (OS), the nonlinear relationship was evaluated through a restricted cubic spline regression analysis, and threshold effects were further calculated using a two-piece-wise Cox proportional hazard model.Results: The study finally selected 749 patients with HCC treated by transarterial chemoembolization (TACE) for the secondary analysis. Considering the ΔLDH within ±80 U/L group as the baseline, the risk of death in the ΔLDH≥80 U/L group was significantly increased by 131% (95%CI: 1.74–3.06), and the risk of death in the ΔLDH≤- 80 U/L group was increased by 24% (HR: 1.23, 95%CI: 0.99–1.55). However, this difference was not statistically significant. Furthermore, with ΔLDH=0 (100 U/L) as the turning point, an upward U-shaped curve could be formed between ΔLDH and OS. After adjusting for confounders, ΔLDH still had a significant effect on the threshold of OS (P=0.021).Conclusion: After TACE, with the increase of LDH index, HCC patients will be closely related to worse OS.
Relationship between the Level of Sacral Resection and Short-Term Outcomes in Patients Undergoing Total Pelvic Exenteration Combined with Sacral Resection for Rectal Cancer
Authors: Komori Koji , Tsukushi Satoshi , Yoshida Masahiro , Kinoshita Takashi , Sato Yusuke , Ouchi Akira , Ito Seiji , Abe Tetsuya , Misawa Kazunari , Ito Yuichi , Natsume Seiji , Higaki Eiji , Okuno Masataka , Fujieda Hironori , Kawakatsu Shoji , Kunitomo Aina , Oki Satoshi , Maeda Shingo , Nagao Takuya , Aritake Tsukasa , Tawada Kakeru , Akaza Satoru , Shimizu Yasuhiro 
Published: March 2022

Abstract
Background: This retrospective study aimed to elucidate the relationships between short-term outcomes following total pelvic exenteration combined with sacral resection (TPES) and operative techniques in patients with rectal cancer.Methods: Data regarding sex, age, body mass index, neoadjuvant therapy, location of sacral resection (“Upper” or “Lower” relative to the level between the 3rd and 4th sacral segment), operative time, bleeding, and curability (R0/R1) were collected and compared to determine their association with complications exhibiting a Clavien–Dindo grade higher than III. Results: The complication rate was significantly higher for recurrent cancers than for primary cancers (p=0.007), and for “Upper” resection than for “Lower” resection (p=0.078). Significant differences were observed when complication rates for “Upper” and “Lower” resection were compared between primary and recurrent cancers (p=0.007).Conclusion: In patients with recurrent rectal cancer, “Upper” sacral resection during TPES is associated with a high complication rate, highlighting the need for careful monitoring.
Tuboovarian Abscess Treatment Outcomes at an Academic Safety Net Hospital in Los Angeles, California
Authors: Lee Samantha Guinevere , Novatt Hilary , Sripras Intira , Nguyen Brian T. 
Published: March 2022

Abstract
Purpose: To identify patient factors associated with medical management failure and hospital readmission among patients admitted with a diagnosis of tuboovarian abscess at a public hospital in Los Angeles, California. Methods: We conducted a retrospective chart review of admissions for tuboovarian abscess from January 2014 through August 2019, describing treatment plans and their subsequent outcomes. Patient factors associated with failure of medical management, as defined by requiring image-guided drainage or surgery, and hospital readmission were identified via bivariate analyses, using Chi-square, Fisher’s exact, and Wilcoxon signed-rank tests as appropriate. Factors independently linked to failure of medical management were determined via logistic regression. Results: We treated 147 patients with tuboovarian abscess over 5 years, comprised primarily of Hispanic/Latinx (74%; n=109/147) women, median age 39 (range: 18-70) years. The median abscess size was 6.3cm (range: 4.8-8.0). Only 16% (n=23/147) who initially received parenteral antibiotic therapy failed medical management. Factors independently and positively linked to parenteral antibiotic failure included elevated white blood cell count (aOR 1.17; 95%CI 1.04-1.32) and abscess size (aOR 1.07; 95%CI 1.04-1.10). No tuboovarian abscesses under 5.5 centimeters required procedural intervention when treated with parenteral antibiotics alone. We identified rehospitalizations among 13.6% (n=20/147) of patients; no factors were significantly linked to rehospitalization.Conclusions: Tuboovarian abscesses were successfully treated with medical management in more than 80% of cases. Early procedural intervention for tuboovarian abscesses greater than 5.5 centimeters in diameter may help to avoid short and long-term morbidities.
Comparing Molecular Biomarker Testing With Immunohistochemical Staining In Predicting Response To Neoadjuvant Therapy In Breast Cancer
Authors: Behairy Mahmoud Abdel-Ghany , Gabal Samia Mohmed , Metenawy Wafaa Hasan El , Kasem Loay Mohamed , Abel-Salam Lubna omar 
Published: March 2022

Abstract
Background: Breast cancer (BC) is the most common cancer type among women world-wide and the major cause of cancer deaths. Many factors affect the prognosis and treatment of BC such as histological grading, staging, as well as the biological markers: Estrogen receptor (ER), Progesterone receptor (PR), HER2 and Ki67. Immunohistochemistry (IHC) remains the corner stone in determining ER, PR, HER2 and Ki67 status for breast cancers, however limitations still exist concerning analytic validity & interpretation. mRNA expression assays can provide an alternative innovative method for measuring these biomarkers. The Xpert Breast Cancer STRAT4 Assay is an in vitro diagnostic test for the determination of overexpression or non-overexpression of ER, PR, HER2 and Ki67 mRNA isolated from 10% neutral buffered FFPE invasive breast tissue.Objectives: Comparing results (concordance) of IHC of ER, PR, Ki67 and Her2 with mRNA gene expression analysis results by STRAT4 for each of the biomarkers tested on the same sample blocks & correlating the results of IHC with the clinico-pathologic parameters of the tumours and clinical outcome of patients. Materials and methods: One hundred BC tissue sections were collected from needle biopsies specimens & were evaluated for expression of the four biomarkers (ER, PR, KI67, Her-2) using IHC and the same blocks were sectioned and tested for mRNA gene expression by the Xpert breast cancer STRAT4 for the same markers. Results: Concordance rate between mRNA expression and IHC was 96% for ER, 94.7% for PR, 93% for HER-2, 97.9% for Ki67, with Kappa measurement showing strong to perfect agreement in the 4 parameters (all > 80%).Conclusion: The study reveals high concordance between central IHC and mRNA measurements of the four main breast cancer biomarkers. STRAT4 can provide an effective modality for standardized results for breast cancer patients.