bluuebunny/crossref_metadata_2025_split huggingface dataset:
Genetic basis of sleep phenotypes and rare neurodevelopmental syndromes reveal shared molecular pathways
Authors: Moysés‐Oliveira Mariana , Paschalidis Mayara , Souza‐Cunha Lais A. , Esteves‐Guerreiro Pedro A. , Adami Luana Nayara Gallego , Kloster Anna K. , Mosini Amanda C. , Moreira Gustavo A. , Doria Sandra , Tempaku Priscila F. , Pires Gabriel N. , Andersen Monica L. , Tufik Sergio 
Published: February 2023

AbstractSleep‐related phenotypes have been frequently reported in early on‐set epileptic encephalopathies and in developmental delay syndromes, in particular in syndromes related to autism spectrum disorder. Yet the convergent pathogenetic mechanisms between these comorbidities are largely unknown. We first performed a gene enrichment study that identified shared risk genes among rare epileptic encephalopathies/neurodevelopmental disorders, rare developmental delay genetic syndromes and sleep disturbances. We then determined cellular and molecular pathways enriched among genes shared between sleep phenotypes and those two early onset mental illnesses, aiming to identify genetic disparities and commonalities among these phenotypic groups. The sleep gene set was observed as significantly overlapped with the two gene lists associated to rare genetic syndromes (i.e., epileptic encephalopathies/neurodevelopmental disorders and developmental delay gene sets), suggesting shared genetic contribution. Similarities across significantly enriched pathways between the two intersect lists comprehended mostly synapse‐related pathways, such as retrograde endocannabinoid signaling, serotonergic, and GABAergic synapse. Network analysis indicates epileptic encephalopathies/neurodevelopmental disorders versus sleep‐specific clusters and developmental delay versus sleep‐specific clusters related to synaptic and transcriptional regulation, respectively. Longstanding functional patterns previously described in epileptic encephalopathies and neurodevelopmental disorders genetic architecture were recaptured after dissecting the overlap between the genes associated to those developmental phenotypes and sleep disturbances, suggesting that during neurodevelopment different molecular and functional mechanisms are related to alterations on circadian rhythm. The overlapping gene set and biological pathways highlighted by this study may serve as a primer for new functional investigations of shared molecular mechanisms between sleep disturbances and rare developmental syndromes.
How deadline orientation and architectural modularity influence software quality and job satisfaction
Authors: Kude Thomas , Foerderer Jens , Mithas Sunil , Heinzl Armin 
Published: February 2023

AbstractThe implementation of digital transformation programs requires careful allocation of software developers to a variety of digital products and services with different levels of modularity. This paper investigates how deadline orientation (an individual‐level preference of developers for completing work close to deadlines) and architectural modularity (a characteristic of products) influence central outcomes in software development. We argue that architectural modularity positively interacts with deadline orientation to influence software quality and the job satisfaction of developers. Our empirical analyses, using rare and high‐quality data from 131 software developers and 29 product owners working at a captive software development center in India of a leading global software firm, confirm our hypotheses. We contribute to the literature on software development by showing that the fit between the technological characteristics of the software product (i.e., architectural modularity) and people factors (i.e., the temporal work style preferences of developers) plays an important role in shaping both software quality and job satisfaction. Our study has wider implications for the literature on software development, temporal work styles, and architectural modularity. It is instructive for practitioners tasked with hiring or allocating software developers for software products with varying technological characteristics in their digital transformation efforts.
Silicon mitigates the negative impacts of salt stress in soybean plants
Authors: Peña‐Calzada Kolima , Olivera‐Viciedo Dilier , Calero‐Hurtado Alexander , de Mello Prado Renato , Habermann Eduardo , Lata Tenesaca Luis Felipe , Ajila Gabriela , de Oliveira Reginaldo , Rodríguez Juan Carlos , Lupino Gratão Priscila 
Published: February 2023

AbstractBACKGROUNDSoybean is widely cultivated around the world, including regions with salinity conditions. Salt stress impairs plant physiology and growth, but recent evidence suggests that silicon (Si) is able to mitigate this stressful condition. Therefore, the purpose of this study was to evaluate how different strategies of Si application impact on salt stress tolerance of an intermediate Si accumulator species (soybean). Therefore, we applied four treatments: Si‐untreated plants (Si 0); foliar spraying at 20 mmol L−1 (Si F); nutritive solution addition at 2.0 mol L−1 (Si R), and combined foliar spraying at 20 mmol L−1 plus nutritive solution at 2.0 mmol L−1 (Si F + R). We investigated how Si application modified growth, leaf gas exchange, photosynthetic pigments, chlorophyll fluorescence, relative water content (RWC), nutrient accumulation, and ion homeostasis of soybean plants submitted to different levels of salt stress (50 and 100 mmol L−1 NaCl).RESULTSSalinity induced an expressive reduction in ion accumulation, plant water status, and growth of soybean, while Si application promoted contrary effects and increased potassium (K+) accumulation, water status, photosynthetic pigment content, chlorophyll fluorescence parameters, and gas exchange attributes. Additionally, Si application enhanced Si accumulation associated with decreased Na+ uptake and improved morpho‐physiological growth.CONCLUSIONThe use of exogenous Si can be an efficient strategy to attenuate the harmful effects of salt stress in soybean plants. The best application strategy was observed with combined foliar spraying with Si included in the nutritive solution (Si F + R). © 2023 Society of Chemical Industry.
Tumor deposits are associated with a higher risk of peritoneal disease in non‐metastatic colorectal cancer patients
Authors: Khan Hamza , Radomski Shannon N. , Siddiqi Amn , Zhou Nancy , Paneitz Dane C. , Johnston Fabian M. , Greer Jonathan B. 
Published: February 2023

AbstractBackground and ObjectivesTumor deposit (TD) is a poor prognostic factor in colorectal cancer (CRC) patients. This study aimed to determine whether TD carry the same risk of peritoneal recurrence as known high‐risk (HR) features in CRC patients.MethodsA retrospective cohort‐study of stage I−III CRC patients from 2010 to 2015 was conducted. TD group was defined by the presence of TD on histopathology whereas HR group was defined by the presence of obstruction, perforation, or T4‐stage.ResultsA total of 151 patients with CRC were identified, of which 50 had TD and 101 had a HR feature. The overall risk of peritoneal recurrence was higher in the TD group versus HR group (36.0% vs. 19.8%, p = 0.03). The risk of peritoneum as the site of first recurrence was also higher in the TD group (22.0% vs. 12.9%, p = 0.03). Overall cancer recurrence at any site was also higher in the TD group (56.0% vs. 34.7%, p = 0.01). Median time to first recurrence was 1.2 (0.7−1.9) years in the TD group compared to 1.4 (0.8−2.1) years in the HR group (p = 0.31).ConclusionsIn non‐metastatic CRC patients, TD might have a higher risk of tumor recurrence versus their HR counterparts. Alternative strategies for surveillance and treatment should be considered.
Socioeconomic status, mental health, and nutrition are the principal traits for low back pain phenotyping: Data from the osteoarthritis initiative
Authors: Huang ZeYu , Guo Weihua , Martin John T. 
Published: February 2023

AbstractBackgroundLow back pain (LBP) is a heterogeneous disease with biological, physical, and psychosocial etiologies. Models for predicting LBP severity and chronicity have not made a clinical impact, perhaps due to difficulty deciphering multidimensional phenotypes. In this study, our objective was to develop a computational framework to comprehensively screen metrics related to LBP severity and chronicity and identify the most influential.MethodsWe identified individuals from the observational, longitudinal Osteoarthritis Initiative cohort (N = 4796) who reported LBP at enrollment (N = 215). OAI descriptor variables (N = 1190) were used to cluster individuals via unsupervised learning and uncover latent LBP phenotypes. We also developed a dimensionality reduction algorithm to visualize clusters/phenotypes using Uniform Manifold Approximation and Projection (UMAP). Next, to predict chronicity, we identified those with acute LBP (N = 40) and persistent LBP over 8 years of follow‐up (N = 66) and built logistic regression and supervised machine learning models.ResultsWe identified three LBP phenotypes: a “high socioeconomic status, low pain severity group”, a “low socioeconomic status, high pain severity group”, and an intermediate group. Mental health and nutrition were also key clustering variables, while traditional biomedical factors (e.g., age, sex, BMI) were not. Those who developed chronic LBP were differentiated by higher pain interference and lower alcohol consumption (a correlate to poor physical fitness and lower soceioeconomic status). All models for predicting chronicity had satisfactory performance (accuracy 76%–78%).ConclusionsWe developed a computational pipeline capable of screening hundreds of variables and visualizing LBP cohorts. We found that socioeconomic status, mental health, nutrition, and pain interference were more influential in LBP than traditional biomedical descriptors like age, sex, and BMI.
Potential of Lesion‐to‐Fat Elasticity Ratio Measured by Shear Wave Elastography to Reduce Benign Biopsies in BI‐RADS 4 Breast Lesions
Authors: Togawa Riku , Pfob André , Büsch Christopher , Alwafai Zaher , Balleyguier Corinne , Clevert Dirk‐André , Duda Volker , Fastner Sarah , Goncalo Manuela , Gomez Christina , Gruber Ines , Hahn Markus , Hennigs André , Kapetas Panagiotis , Nees Juliane , Ohlinger Ralf , Riedel Fabian , Rutten Matthieu , Schäfgen Benedikt , Stieber Anne , Tozaki Mitsuhiro , Wojcinski Sebastian , Rauch Geraldine , Heil Jörg , Barr Richard , Golatta Michael 
Published: February 2023

ObjectivesWe evaluated whether lesion‐to‐fat ratio measured by shear wave elastography in patients with Breast Imaging Reporting and Data System (BI‐RADS) 3 or 4 lesions has the potential to further refine the assessment of B‐mode ultrasound alone in breast cancer diagnostics.MethodsThis was a secondary analysis of an international diagnostic multicenter trial (NCT02638935). Data from 1288 women with breast lesions categorized as BI‐RADS 3 and 4a–c by conventional B‐mode ultrasound were analyzed, whereby the focus was placed on differentiating lesions categorized as BI‐RADS 3 and BI‐RADS 4a. All women underwent shear wave elastography and histopathologic evaluation functioning as reference standard. Reduction of benign biopsies as well as the number of missed malignancies after reclassification using lesion‐to‐fat ratio measured by shear wave elastography were evaluated.ResultsBreast cancer was diagnosed in 368 (28.6%) of 1288 lesions. The assessment with conventional B‐mode ultrasound resulted in 53.8% (495 of 1288) pathologically benign lesions categorized as BI‐RADS 4 and therefore false positives as well as in 1.39% (6 of 431) undetected malignancies categorized as BI‐RADS 3. Additional lesion‐to‐fat ratio in BI‐RADS 4a lesions with a cutoff value of 1.85 resulted in 30.11% biopsies of benign lesions which correspond to a reduction of 44.04% of false positives.ConclusionsAdding lesion‐to‐fat ratio measured by shear wave elastography to conventional B‐mode ultrasound in BI‐RADS 4a breast lesions could help reduce the number of benign biopsies by 44.04%. At the same time, however, 1.98% of malignancies were missed, which would still be in line with American College of Radiology BI‐RADS 3 definition of <2% of undetected malignancies.
Reforestation, livelihoods and income equality: Lessons learned from China's Conversion of Cropland to Forest Program
Authors: Moioli Camilla , Shrestha Anil , Roeser Dominik , Wang Guangyu , Sunderland Terry , Zerriffi Hisham 
Published: February 2023

AbstractDespite global momentum in restoration activities, their socio‐economic implications are little studied. Thus far, the limited evidence available tends to overlook equity and equality outcomes. In this work, we aimed at investigating fairness within the Chinese Conversion of Cropland to Forest Program (CCFP), given the relevance of local people's support for the long‐term success of land restoration and for the inherent belief that equity should be pursued also by environmental policies. Additionally, we propose a methodology to investigate equity and equality, from a quantitative perspective. Our results suggested a shift in the overall households' economic structure, with the main changes being a decrease in farming activities (−44 pp) and a sharp increase in out‐migration (+44 pp), with the most significant variation within the lowest income groups (−57 pp and + 75 pp, respectively). We also observed that both equality (the Gini coefficient decreased by 23%) and equity (higher income increase for low‐income groups) improved, and the best enhancement happened in the regions where the CCFP has been implemented for a longer time. Moreover, data showed that the main driver of inequality was households' income deriving from remittances, both before and after the Program implementation (with concentration coefficient equal to 1.1 and 1.0, respectively) but its effect decreased over time suggesting an increase in out‐migration opportunities for lower‐income households. Finally, we found that the level of participation in the Program holds a quite strong explanatory power for both on‐farm and off‐farm income (explaining 19% and 18% of their respective variability).
Prevalence of otolaryngological disease in a refugee population compared to US‐born patients
Authors: Jaradeh Katrin , Tang Alice , Czechowicz Josephine A. , Jacobson Lia , Raphael Eva 
Published: February 2023

AbstractObjectiveLimited data exists regarding otolaryngological (ENT) disease in refugees and we aim to characterize its prevalence.MethodsThis is a retrospective descriptive chart review of adult US‐born, immigrant, and refugee patients receiving care at a primary care clinic between 2014 and 2017. We report the prevalence of ENT disease by immigration status. Bivariable and multivariable logistic regression models were conducted to assess differences in prevalence of ENT disease by immigration status.ResultsOf 995 patients included, 202 US‐born, 450 immigrants, and 343 were refugees. Immigrants were older (46 years vs. 34 years among refugees, 35.5 years among US‐born, p < .001) and more likely to be women (64% vs. 52% among refugees and 56% among US‐born, p = .003). Among refugees, 27% were Central American, 22% Chinese, and 9.3% Middle Eastern. Hearing loss and allergic rhinitis were the top two diagnoses among the three groups of immigration status. More refugees had at least 1 ENT diagnosis compared to the other groups (16% vs 14% among immigrants and 6% US‐born, p < .001). Refugees were more likely to have at least 1 ENT diagnosis compared to US‐born individuals (age and gender adjusted [aOR] 3.40, 95% CI [1.80–6.95], p < .001) and immigrants (aOR 1.62, [1.05–2.51], p = .03).ConclusionENT disease is prevalent among refugees, necessitating standardized evaluation during refugee health assessments and identifying barriers to referral and treatment.Level of evidence2b.
Dy3+ Doped All‐Inorganic Perovskite Nanocrystals Glass toward High‐Performance and High‐Stability Silicon Photodetectors
Authors: Hao Mengyang , Cheng Shun , He Ye , Xiang Weidong , Ding Nan , Xu Wen , Ma Chong‐Geng , Liang Xiaojuan 
Published: February 2023

AbstractSilicon (Si) photodetectors (PDs) have attracted more attention due to their wide applications, but are limited by their extremely weak ultraviolet (UV) photo‐response. Herein, Dy3+‐CsPbCl2Br1 nanocrystals glass (Dy3+‐CPCB NCsG) is synthesized in borosilicate glass by traditional melt‐quenching. The doping of Dy3+ exceedingly improves the PL intensity of CsPbCl2Br1 nanocrystals glass (CPCB NCsG) with enhancing photoluminescence quantum yield from 8.0% to 30.2%, ascribed to the improved crystallinity and reduced defects. Meanwhile, the stability of CPCB NCsG exposed to air, light, and high temperature is largely boosted. After integrating with Dy3+‐CPCB NCsG, the responsivity, external quantum efficiency, detectivity, and stability of Si PDs are significantly enhanced. The responsivity (R) of Si PDs‐5% Dy3+‐CPCB NCsG is 0.006 A W−1 at 320 nm, which is sixfold higher than that of bare Si PDs. This work develops a blue Dy3+‐CPCB NCsG, which has great potential as a new luminescent material for the next generation of Si PDs.
Reaction between 1,3,5‐Triisopropylbenzene and Elemental Sulfur Extending the Scope of Reagents in Inverse Vulcanization
Authors: Lai Yue‐Sheng , Liu Ying‐Ling 
Published: February 2023

AbstractInverse vulcanization utilizes an organic compound as reagent for crosslinking elemental sulfur to result in corresponding polymeric material with a high sulfur content. This work, employing 1,3,5‐triisopropylbenzene (TIPB) as the reagent, demonstrates the first attempt on extending the scope of crosslinking agents of inverse vulcanization to saturate compounds. Under nuclear magnetic spectroscopic analysis, the reactions between TIPB and elemental sulfur take places through ring‐opening reaction of S8 resulting in sulfur radicals at sulfur chain ends, radicals transferring to isopropyl groups of TIPB, and radical coupling reactions between carbon radicals and sulfur radicals. The obtained products are similar to the sulfur polymers from conventional inverse vulcanization processes and show self‐healing property.
Statin Use and Incidence of Parkinson's Disease in Women from the French E3N Cohort Study
Authors: Nguyen Thi Thu Ha , Fournier Agnès , Courtois Émeline , Artaud Fanny , Escolano Sylvie , Tubert‐Bitter Pascale , Boutron‐Ruault Marie‐Christine , Degaey Isabelle , Roze Emmanuel , Canonico Marianne , Ahmed Ismaïl , Thiébaut Anne C.M. , Elbaz Alexis 
Published: February 2023

AbstractBackgroundStatins represent candidates for drug repurposing in Parkinson's disease (PD). Few studies examined the role of reverse causation, statin subgroups, and dose–response relations based on time‐varying exposures.ObjectivesWe examined whether statin use is associated with PD incidence while attempting to overcome the limitations described previously, especially reverse causation.MethodWe used data from the E3N cohort study of French women (follow‐up, 2004–2018). Incident PD was ascertained using multiple sources and validated by experts. New statin users were identified through linked drug claims. We set up a nested case‐control study to describe trajectories of statin prescriptions and medical consultations before diagnosis. We used time‐varying multivariable Cox proportional hazards regression models to examine the statins–PD association. Exposure indexes included ever use, cumulative duration/dose, and mean daily dose and were lagged by 5 years to address reverse causation.ResultsThe case‐control study (693 cases, 13,784 controls) showed differences in case‐control trajectories, with changes in the 5 years before diagnosis in cases. Of 73,925 women (aged 54–79 years), 524 developed PD and 11,552 started using statins in lagged analyses. Ever use of any statin was not associated with PD (hazard ratio [HR] = 0.87, 95% confidence interval [CI] = 0.67–1.11). Alternatively, ever use of lipophilic statins was significantly associated with lower PD incidence (HR = 0.70, 95% CI = 0.51–0.98), with a dose–response relation for the mean daily dose (P‐linear trend = 0.02). There was no association for hydrophilic statins.ConclusionUse of lipophilic statins at least 5 years earlier was associated with reduced PD incidence in women, with a dose–response relation for the mean daily dose. © 2023 The Authors. Movement Disorders published by Wiley Periodicals LLC on behalf of International Parkinson and Movement Disorder Society.
Contouring quality assurance methodology based on multiple geometric features against deep learning auto‐segmentation
Authors: Duan Jingwei , Bernard Mark E. , Castle James R. , Feng Xue , Wang Chi , Kenamond Mark C. , Chen Quan 
Published: February 2023

AbstractBackgroundContouring error is one of the top failure modes in radiation treatment. Multiple efforts have been made to develop tools to automatically detect segmentation errors. Deep learning‐based auto‐segmentation (DLAS) has been used as a baseline for flagging manual segmentation errors, but those efforts are limited to using only one or two contour comparison metrics.PurposeThe purpose of this research is to develop an improved contouring quality assurance system to identify and flag manual contouring errors.Methods and materialsDLAS contours were used as a reference to compare with manually segmented contours. A total of 27 geometric agreement metrics were determined from the comparisons between the two segmentation approaches. Feature selection was performed to optimize the training of a machine learning classification model to identify potential contouring errors. A public dataset with 339 cases was used to train and test the classifier. Four independent classifiers were trained using five‐fold cross validation, and the predictions from each classifier were ensembled using soft voting. The trained model was validated on a held‐out testing dataset. An additional independent clinical dataset with 60 cases was used to test the generalizability of the model. Model predictions were reviewed by an expert to confirm or reject the findings.ResultsThe proposed machine learning multiple features (ML‐MF) approach outperformed traditional nonmachine‐learning‐based approaches that are based on only one or two geometric agreement metrics. The machine learning model achieved recall (precision) values of 0.842 (0.899), 0.762 (0.762), 0.727 (0.842), and 0.773 (0.773) for Brainstem, Parotid_L, Parotid_R, and mandible contours, respectively compared to 0.526 (0.909), 0.619 (0.765), 0.682 (0.882), 0.773 (0.568) for an approach based solely on Dice similarity coefficient values. In the external validation dataset, 66.7, 93.3, 94.1, and 58.8% of flagged cases were confirmed to have contouring errors by an expert for Brainstem, Parotid_L, Parotid_R, and mandible contours, respectively.ConclusionsThe proposed ML‐MF approach, which includes multiple geometric agreement metrics to flag manual contouring errors, demonstrated superior performance in comparison to traditional methods. This method is easy to implement in clinical practice and can help to reduce the significant time and labor costs associated with manual segmentation and review.