bluuebunny/crossref_metadata_2025_split huggingface dataset:
The impact of serum 25-hydroxyvitamin D, calcium, and parathyroid hormone levels on the risk of coronary artery disease in patients with diabetes: a Mendelian randomization study
Authors: Chen Songzan , Yang Fangkun , Xu Tian , Wang Yao , Zhang Kaijie , Fu Guosheng , Zhang Wenbin 
Published: October 2021

Abstract
Background
To investigate the causal association between serum 25-hydroxyvitamin D (25OHD), calcium (Ca), and parathyroid hormone (PTH) levels and the risk of coronary artery disease (CAD) in patients with diabetes using a Mendelian randomization approach.

Methods
Genetic signatures associated with serum 25OHD, Ca, and PTH levels were extracted from recently published genome-wide association study (GWAS), including 79,366, 39,400, 29,155 individuals, respectively. Genetic association estimates for CAD in patients with diabetes were obtained from a GWAS of 15,666 individuals with diabetes (3,968 CAD cases, 11,696 controls). The inverse-variance-weighted method was employed for the primary analysis, and other robust methods were applied for sensitivity analyses.

Results
Six, seven and five single nucleotide polymorphisms were identified as instrumental variables for serum 25OHD, Ca and PTH levels, respectively. There was no significant association between genetically predicted serum 25OHD levels and the risk of CAD in patients with diabetes (odds ratio (OR) = 1.04, 95% confidence interval (CI): 0.58 - 1.87, P = 0.888). Similarly, genetically predicted serum Ca (OR = 1.83, 95% CI: 0.62 – 5.35, P = 0.273) and PTH levels (OR = 1.27, 95% CI: 0.67 – 2.44, P = 0.464) were not significantly associated with the risk of CAD in patients with diabetes. These findings were robust in sensitivity analyses.

Conclusions/interpretation
Serum 25OHD, Ca and PTH levels may not be causally associated with the risk of CAD in patients with diabetes.
Leveraging open data to reconstruct the Singapore Housing Index and other building-level markers of socioeconomic status for health services research
Authors: Lim Daniel Yan Zheng , Wong Ting Hway , Feng Mengling , Ong Marcus Eng Hock , Ho Andrew Fu Wah 
Published: October 2021

Abstract
Background
Socioeconomic status (SES) is an important determinant of health, and SES data is an important confounder to control for in epidemiology and health services research. Individual level SES measures are cumbersome to collect and susceptible to biases, while area level SES measures may have insufficient granularity. The ‘Singapore Housing Index’ (SHI) is a validated, building level SES measure that bridges individual and area level measures. However, determination of the SHI has previously required periodic data purchase and manual parsing. In this study, we describe a means of SHI determination for public housing buildings with open government data, and validate this against the previous SHI determination method.

Methods
Government open data sources (e.g. data.gov.sg, Singapore Land Authority OneMAP API, Urban Redevelopment Authority API) were queried using custom Python scripts. Data on residential public housing block address and composition from the HDB Property Information dataset (data.gov.sg) was matched to postal code and geographical coordinates via OneMAP API calls. The SHI was calculated from open data, and compared to the original SHI dataset that was curated from non-open data sources in 2018.

Results
Ten thousand seventy-seven unique residential buildings were identified from open data. OneMAP API calls generated valid geographical coordinates for all (100%) buildings, and valid postal code for 10,012 (99.36%) buildings. There was an overlap of 10,011 buildings between the open dataset and the original SHI dataset. Intraclass correlation coefficient was 0.999 for the two sources of SHI, indicating almost perfect agreement. A Bland-Altman plot analysis identified a small number of outliers, and this revealed 5 properties that had an incorrect SHI assigned by the original dataset. Information on recently transacted property prices was also obtained for 8599 (85.3%) of buildings.

Conclusion
SHI, a useful tool for health services research, can be accurately reconstructed using open datasets at no cost. This method is a convenient means for future researchers to obtain updated building-level markers of socioeconomic status for policy and research.
Francisella philomiragia bacteremia in an immunocompromised patient: a rare case report
Authors: Chua Hui Shan , Soh Yih Harng , Loong Shih Keng , AbuBakar Sazaly 
Published: October 2021

Abstract
Background
Francisella philomiragia is a very rare opportunistic pathogen of humans which causes protean diseases such as pneumonia and other systemic infections. Subsequent failure of prompt treatment may result in poor prognosis with mortality among infected patients.

Case presentation
The present report describes a case of F. philomiragia bacteraemia first reported in Malaysia and Asian in a 60-year-old patient with underlying end-stage renal disease (ESRF) and diabetes mellitus. He presented with Acute Pulmonary Oedema with Non-ST-Elevation Myocardial Infarction (NSTEMI) in our hospital. He was intubated in view of persistent type I respiratory failure and persistent desaturation despite post haemodialysis. Blood investigation indicated the presence of ongoing infection and inflammation. The aerobic blood culture growth of F. philomiragia was identified using the matrix-assisted laser desorption/ionization-time of flight (MALDI-TOF) mass spectrometry (Score value: 2.16) and confirmed by 16S Ribosomal DNA (16S rDNA) sequencing. He was discharged well on day 26 of admission, after completing one week of piperacillin/tazobactam and two weeks of doxycycline.

Conclusion
Clinical suspicion should be raised if patients with known risk factors are presenting with pneumonia or pulmonary nodules especially as these are the most common manifestations of F. philomiragia infection. Early diagnosis via accurate laboratory identification of the organism through MALDI-TOF mass spectrometry and molecular technique such as 16S rDNA sequencing are vital for prompt treatment that results in better outcomes for the afflicted patients.
COVID-19 in pregnancy: placental pathological patterns and effect on perinatal outcome in five cases
Authors: Giordano Giovanna , Petrolini Chiara , Corradini Emilia , Campanini Nicoletta , Esposito Susanna , Perrone Serafina 
Published: October 2021

Abstract
Introduction
COVID-19, the disease caused by the novel coronavirus SARS-CoV-2, is a severe systemic thrombotic syndrome that emerged in 2019, with an ensuing pandemic.
To evaluate the impact of this disease on placental tissue and perinatal outcome, histological, immunohistochemical and ultrastructural analyses of placental tissue were performed for five cases of pregnant women with COVID-19.

Case reports
All five pregnant women in this series developed COVID-19 in late pregnancy. Two patients experienced respiratory distress, and computed tomography revealed signs of pneumonia, with bilateral involvement, multiple lobular and subsegmental areas of consolidation and ground-glass opacities.
Histological studies of placental tissue revealed the presence of slight signs of maternal vascular underperfusion (MVUs) or foetal vascular underperfusion (FVUs) lesions and mild inflammatory lesions. CD15 immunoreactivity in the placental tissue was low in all cases, demonstrating that in these cases there was not severe foetal hypoxia/asphyxia risk for newborns or distal vascular immaturity.
In all cases examined, ultrastructural analyses showed spherical-like coronavirus particles with an electron intermediate-density core as well as projections from the surface as spike-like structures in the syncytiotrophoblasts. At term, all of the women delivered newborns who were negative for SARS-CoV-2 by nasopharyngeal testing in their first day of life. All newborns were exclusively breastfed and were discharged on the 3rd day of life.

Conclusions
In conclusion, placental patterns in pregnancy due to COVID-19 in the late stage of gestation indicate no evidence of vertical trans-placental SARS-CoV-2 transmission or a significant impact on the perinatal outcome of newborns, in both mild and more severe cases.
Oestrogen deprivation induces chemokine production and immune cell recruitment in in vitro and in vivo models of oestrogen receptor-positive breast cancer
Authors: Hazlett Jody , Niemi Virginia , Aiderus Aziz , Powell Katelyn , Wise Lyn , Kemp Roslyn , Dunbier Anita K. 
Published: October 2021

Abstract
Background
Oestrogen receptor-positive (ER+) breast cancer is commonly treated using endocrine therapies such as aromatase inhibitors which block synthesis of oestradiol, but the influence of this therapy on the immune composition of breast tumours has not been fully explored. Previous findings suggest that tumour infiltrating lymphocytes and immune-related gene expression may be altered by treatment with aromatase inhibitors. However, whether these changes are a direct result of impacts on the host immune system or mediated through tumour cells is not known. We aimed to investigate the effect of oestrogen deprivation on the expression of chemokines and immune infiltration in vitro and in an ER+ immunocompetent mouse model.

Methods
RT-qPCR and a bead-based Bioplex system were used to investigate the expression of chemokines in MCF-7 breast cancer cells deprived of oestrogen. A migration assay and flow cytometry were used to measure the migration of human peripheral blood mononuclear cells (PBMCs) to MCF-7 cells grown without the main biologically active oestrogen, oestradiol. Using flow cytometry and immunohistochemistry, we examined the immune cell infiltrate into tumours created by injecting SSM3 ER+ breast cancer cells into wild-type, immunocompetent 129/SvEv mice.

Results
This study demonstrates that oestrogen deprivation increases breast cancer secretion of TNF, CCL5, IL-6, IL-8, and CCL22 and alters total human peripheral blood mononuclear cell migration in an in vitro assay. Oestrogen deprivation of breast cancer cells increases migration of CD4+ T cells and decreases migration of CD11c+ and CD14+ PBMC towards cancer cells. PBMC migration towards breast cancer cells can be reduced by treatment with the non-steroidal anti-inflammatory drugs, aspirin and celecoxib. Treatment with endocrine therapy using the aromatase inhibitor letrozole increases CD4+ T cell infiltration into ER+ breast cancer tumours in immune competent mice.

Conclusions
These results suggest that anti-oestrogen treatment of ER+ breast cancer cells can alter cytokine production and immune cells in the area surrounding the cancer cells. These findings may have implications for the combination and timing of anti-oestrogen therapies with other therapies.
A single-cell interactome of human tooth germ from growing third molar elucidates signaling networks regulating dental development
Authors: Shi Yueqi , Yu Yejia , Zhou Yuqiong , Zhao Jun , Zhang Wenjie , Zou Duohong , Song Weichen , Wang Shaoyi 
Published: October 2021

Abstract
Background
Development of dental tissue is regulated by extensive cell crosstalk based on various signaling molecules, such as bone morphogenetic protein (BMP) and fibroblast growth factor (FGF) pathways. However, an intact network of the intercellular regulation is still lacking.

Result
To gain an unbiased and comprehensive view of this dental cell interactome, we applied single-cell RNA-seq on immature human tooth germ of the growing third molar, discovered refined cell subtypes, and applied multiple network analysis to identify the central signaling pathways. We found that immune cells made up over 80% of all tooth germ cells, which exhibited profound regulation on dental cells via Transforming growth factor-β, Tumor necrosis factor (TNF) and Interleukin-1. During osteoblast differentiation, expression of genes related to extracellular matrix and mineralization was continuously elevated by signals from BMP and FGF family. As for the self-renewal of apical papilla stem cell, BMP-FGFR1-MSX1 pathway directly regulated the G0-to-S cell cycle transition. We also confirmed that Colony Stimulating Factor 1 secreted from pericyte and TNF Superfamily Member 11 secreted from osteoblast regulated a large proportion of genes related to osteoclast transformation from macrophage and monocyte.

Conclusions
We constructed the intercellular signaling networks that regulated the essential developmental process of human tooth, which served as a foundation for future dental regeneration engineering and the understanding of oral pathology.
An adaptive splitting algorithm for the sum of two generalized monotone operators and one cocoercive operator
Authors: Dao Minh N. , Phan Hung M. 
Published: October 2021

AbstractSplitting algorithms for finding a zero of sum of operators often involve multiple steps which are referred to as forward or backward steps. Forward steps are the explicit use of the operators and backward steps involve the operators implicitly via their resolvents. In this paper, we study an adaptive splitting algorithm for finding a zero of the sum of three operators. We assume that two of the operators are generalized monotone and their resolvents are computable, while the other operator is cocoercive but its resolvent is missing or costly to compute. Our splitting algorithm adapts new parameters to the generalized monotonicity of the operators and, at the same time, combines appropriate forward and backward steps to guarantee convergence to a solution of the problem.
A case of Castleman disease with hemophagocytic syndrome derived from HHV8 infection
Authors: Cui Xiao , Wu Yongfeng , Jia Lin , Chang Jing , Li Chuanyun , Guo Caiping , Zhang Tong , Ma Yingmin , Zhang Yulin 
Published: October 2021

Abstract
Background
For a patient presenting with fever, multiple lymphadenopathy and splenomegaly, pathogen infection should be preferentially considered, followed by lymphoid malignancies. When traditional laboratory and pathological detection cannot find the pathogenic microorganism, metagenomic sequencing (MGS) which targets the person’s genome for exceptional genetic disorders may detect a rare pathogen.

Case presentation
Here, we introduced the diagnostic clue of a case of multicentric Castleman disease (MCD) with hemophagocytic syndrome which was elicited from the detection of human herpesvirus-8 in the blood of a HIV-1 infected person by MGS technology during pathogen inspection. This case highlights the need to increase the awareness of MCD among clinicians and pathologists.

Conclusions
MGS technology may play a pivotal role in providing diagnostic clues during pathogen inspection, especially when pathogens are not detectable by conventional methods.
Industrial Digital Twins based on the non-linear LATIN-PGD
Authors: Barabinot Philippe , Scanff Ronan , Ladevèze Pierre , Néron David , Cauville Bruno 
Published: October 2021

AbstractDigital Twins, which tend to intervene over the entire life cycle of products from early design phase to predictive maintenance through optimization processes, are increasingly emerging as an essential component in the future of industries. To reduce the computational time reduced-order modeling (ROM) methods can be useful. However, the spread of ROM methods at an industrial level is currently hampered by the difficulty of introducing them into commercial finite element software, due to the strong intrusiveness of the associated algorithms, preventing from getting robust and reliable tools all integrated in a certified product. This work tries to circumvent this issue by introducing a weakly-invasive reformulation of the LATIN-PGD method which is intended to be directly embedded into Simcenter Samcef$$^{\hbox {TM}}$$TMfinite element software. The originality of this approach lies in the remarkably general way of doing, allowing PGD method to deal with not only a particular application but with all facilities already included in such softwares—any non-linearities, any element types, any boundary conditions...—and thus providing a new high-performance all-inclusive non-linear solver.
Enhanced parametric shape descriptions in PGD-based space separated representations
Authors: Kazemzadeh-Parsi Mohammad Javad , Ammar Amine , Duval Jean Louis , Chinesta Francisco 
Published: October 2021

AbstractSpace separation within the Proper Generalized Decomposition—PGD—rationale allows solving high dimensional problems as a sequence of lower dimensional ones. In our former works, different geometrical transformations were proposed for addressing complex shapes and spatially non-separable domains. Efficient implementation of separated representations needs expressing the domain as a product of characteristic functions involving the different space coordinates. In the case of complex shapes, more sophisticated geometrical transformations are needed to map the complex physical domain into a regular one where computations are performed. This paper aims at proposing a very efficient route for accomplishing such space separation. A NURBS-based geometry representation, usual in computer aided design—CAD—, is retained and combined with a fully separated representation for allying efficiency (ensured by the fully separated representations) and generality (by addressing complex geometries). Some numerical examples are considered to prove the potential of the proposed methodology.
RALSA: the R analyzer for large-scale assessments
Authors: Mirazchiyski Plamen V. 
Published: October 2021

AbstractThis paper presents the R Analyzer for Large-Scale Assessments (), a newly developed package for analyzing data from studies using complex sampling and assessment designs. Such studies are, for example, the IEA’s Trends in International Mathematics and Science Study and the OECD’s Programme for International Student Assessment. The package covers all cycles from a broad range of studies. The paper presents the architecture of the package, the overall workflow and illustrates some basic analyses using it. The package is open-source and free of charge. Other software packages for analyzing large-scale assessment data exist, some of them are proprietary, others are open-source. However, is the first comprehensive package, designed for the user experience and has some distinctive features. One innovation is that the package can convert SPSS data from large scale assessments into native data sets. It can also do so for PISA data from cycles prior to 2015, where the data is provided in tab-delimited text files along with SPSS control syntax files. Another feature is the availability of a graphical user interface, which is also written in and operates in any operating system where a full copy of can be installed. The output from any analysis function is written into an MS Excel workbook with multiple sheets for the estimates, model statistics, analysis information and the calling syntax itself for reproducing the analysis in future. The flexible design of allows for the quick addition of new studies, analysis types and features to the existing ones.
Clinical strategies for reducing firearm suicide
Authors: Pallin Rocco , Barnhorst Amy 
Published: October 2021

AbstractSuicide is complex, with psychiatric, cultural, and socioeconomic roots. Though mental illnesses like depression contribute to risk for suicide, access to lethal means such as firearms is considered a key risk factor for suicide, and half of suicides in the USA are by firearm. When a person at risk of suicide has access to firearms, clinicians have a range of options for intervention. Depending on the patient, the situation, and the access to firearms, counseling on storage practices, temporary transfer of firearms, or further intervention may be appropriate. In the USA, ownership of and access to firearms are common and discussing added risk of access to firearms for those at risk of suicide is not universally practiced. Given the burden of suicide (particularly by firearm) in the USA, the prevalence of firearm access, and the lethality of suicide attempts with firearms, we present the existing evidence on the burden of firearm suicide and what clinicians can do to reduce their patients’ risk. Specifically, we review firearm ownership in the USA, firearm injury epidemiology, risk factors for firearm-related harm, and available interventions to reduce patients’ risk of firearm injury and death.
Evaluation of implanted perforated lacrimal punctal plugs using anterior segment optical coherence tomography
Authors: Abdallah Raafat Mohyeldeen Abdelrahman , Elshafei Ahmed Mohamed Kamal , AttaAllah Heba Radi 
Published: October 2021

Abstract
Purpose
Evaluation of the patency and position of perforated lacrimal punctal plugs implanted for treating punctal stenosis together with quantitative assessment of the precorneal tear film using anterior segment optical coherence tomography (AS-OCT).

Methods
In a prospective study, the lower punctum of 54 eyes of 29 patients implanted with perforated punctal plugs were examined using AS-OCT during the early postoperative period. Preoperative tear meniscus height (TMH) and tear meniscus area (TMA) were evaluated. Postoperatively, the patency of the plug, its position, TMH and TMA were evaluated, and the results were correlated with postoperative epiphora. Munk scale was used for epiphora grading.

Results
Using AS-OCT, 48 (88.9%) plugs were found in proper position while 6 (11.1%) were rotated. The lumen of the plugs was completely patent in 47 (87%) plugs, partially obstructed in 2 (3.7%) plugs and completely occluded in 5 (9.2%) plugs. There was a statistically significant postoperative decrease of TMH and TMA (P < 0.001) and postoperative epiphora Munk score (P < 0.001).

Conclusion
AS-OCT is a valuable, reliable, and noninvasive investigative tool that can detect the proper positioning, patency, and contents of the implanted perforated lacrimal punctal plugs in addition to measurement of TMH and TMA.
Trial registration ClinicalTrials.gov ID: NCT04624022, https://clinicaltrials.gov/ct2/show/NCT04624022