bluuebunny/crossref_metadata_2025_split huggingface dataset:
Ultrasound Guidance Combined with C-Arm Fluoroscopy in Selective Semilunar Ganglion Radiofrequency Thermocoagulation Through the Foramen Ovale for Trigeminal Neuralgia: A Randomized Controlled Trial
Authors: Liang Hui , Guo Yuna , Chen Guoqing , Zhao Xiaojing , Dou Zhi , Sun Fenglong , Yu Dejun , Lin Zengmao , Zhang Feng , Liu Xiufen , Wu Baishan , Ni Jiaxiang 
Published: September 2022

AbstractObjectiveTo explore the clinical value of ultrasound guidance combined with C-arm guidance during selective semilunar ganglion radiofrequency thermocoagulation via the foramen ovale for trigeminal neuralgia.MethodsThis study enrolled 48 patients diagnosed with trigeminal neuralgia between January 2021 and December 2021 in the Department of Pain Management at Xuanwu Hospital. Patients were randomly and equally divided into a C-arm–only group and an ultrasound-combined-with–C-arm (ultrasound+C-arm) group, according to a random number table. After exclusions, 42 patients were analyzed. Of these, 21 patients underwent selective semilunar ganglion radiofrequency thermocoagulation via the foramen ovale guided by the C-arm alone, whereas 21 patients underwent the same procedure guided by ultrasound combined with C-arm. The number of punctures, the amount of time elapsed until the target area of the semilunar ganglion was punctured, the cumulative dose of radiation exposure, and puncture-related complications were recorded during the operation. Numerical rating scale scores and radiofrequency thermocoagulation–related complications were evaluated preoperatively and at 1 day, 3 days, 7 days, 1 month, and 3 months after surgery.ResultsThe number of punctures, the amount of time elapsed until the target area of the semilunar ganglion was punctured, and the cumulative dose of radiation exposure were all lower in the ultrasound+C-arm group than in the C-arm–only group (all P &lt; 0.05). No significant differences were found in numerical rating scale scores and radiofrequency thermocoagulation–related complications between the two groups (P &gt; 0.05). No puncture-related complications occurred in either of the groups.ConclusionUltrasound guidance combined with C-arm guidance could be safely used for puncturing the semilunar ganglion via the foramen ovale, with more efficiency and less radiation exposure than C-arm guidance alone.
Sociolinguistic Variation, Speech Acts, and Discursive Injustice
Authors: Nowak Ethan 
Published: September 2022

Abstract
Despite its status at the heart of a closely related field, philosophers have so far mostly overlooked a phenomenon sociolinguists call ‘social meaning’. My aim in this paper will be to show that by properly acknowledging the significance of social meanings, we can identify an important new set of forms that discursive injustice takes. I begin by surveying some data from variationist sociolinguistics that reveal how subtle differences in the way a particular content is expressed allow us to perform importantly different illocutionary actions, actions we use to do things like constructing a public persona and building a rapport with an audience. The social importance of these activities and the pervasiveness of our engagement in them means that the ethical stakes involved are high—substantial injustices may result if speakers from different social groups are differently empowered with regard to the illocutionary possibilities made available to them by variation.
Persistent consumer response to a nationwide food safety recall in urban India
Authors: Law Cherry , Cornelsen Laura 
Published: September 2022

Abstract
Little is known about consumer response to food safety recalls in low- and middle- income countries. Using an event-study framework, this paper examines the immediate and long-term changes in noodle purchases after the nationwide removal of Maggi instant noodles from the market in India in 2015. We show that this recall had a negative impact on the purchases of Maggi noodles among urban households for at least two years. This provides evidence of the huge costs of recalls on food producers that can be leveraged by policymakers to promote food safety. We also find strong evidence for a positive spillover effect to non-Maggi noodles that is more persistent among households with more regular purchasing habits of Maggi noodles. This indicates that consumers with more persistent habits of buying a recalled product are less likely to stigmatize alike food products under different brands. Our results are robust to alternative assumptions of pre-trends in purchases and placebo tests.
A Suture Fixation Technique for Tibial Spine Avulsion Injuries
Authors: Tayne Samantha , Tran Tram , Vij Neeraj , Vaughn Jeffrey , Treme Gehron , Menzer Heather 
Published: September 2022

Introduction:
Tibial spine fractures typically occur in skeletally immature patients between 8 and 14 years of age. Surgical treatment is generally pursued for displaced fractures that cannot be reduced with closed manipulation. Recent biomechanical evidence favors suture fixation over screw fixation. Current suture-only techniques largely revolve around double-crossed suture configuration and lack a description regarding a form of secondary fixation. The purpose of this manuscript is to describe 2 additions to the existing suture-only techniques for pediatric tibial spine avulsion injuries.

Materials and Methods (Surgical Technique):
Our technique involves a U-pattern and an X-pattern suture configuration for the primary fixation. Secondary fixation is achieved with an extra-articular knotless anchor.

Results:
This technical write-up describes a suture fixation technique for pediatric tibial spine injuries.

Discussion:
There has been a shift in the literature toward suture fixation over screw fixation in cartilaginous and comminuted tibial spine avulsion injuries. In this article, we describe an arthroscopic suture fixation technique. The proposed benefits include better anatomic reduction of the fracture and improved force dissipation. Suture fixation is not without complications, namely residual laxity, which can be minimized through the use of a self-tension/continuous compression suture.
Comprehensive analysis identifies as a critical prognostic prediction gene in breast cancer
Authors: Hu Ting , Wang Xu , Xia Yun , Wu Lu , Ma Yuxi , Zhou Rui , Zhao Yanxia 
Published: September 2022

Abstract

Background:
Aurora kinases (AURKs) family plays a vital role not only in cell division but also in tumorigenesis. However, there are still rare systematic analyses of the diverse expression patterns and prognostic value of the AURKs family in breast cancer (BC). Systematic bioinformatics analysis was conducted to explore the biological role, prognostic value, and immunologic function of AURKs family in BC.

Methods:
The expression, prognostic value, and clinical functions of AURKs family in BC were evaluated with several bioinformatics web portals: ONCOMINE Gene Expression Profiling Interactive Analysis, Kaplan–Meier plotter, cBioPortal, Metascape, GeneMANIA, and LinkedOmics; and the result was verified using human tissues.

Results:
The expression of AURKA and AURKB were upregulated in BC in subgroup analyses based on tumor stage (all P
< 0.05). BC patients with high AURKA and AURKB expression had a worse overall survival, relapse-free survival, and distant metastasis-free survival (all P
< 0.05). Verification experiment revealed that AURKA and AURKB were upregulated in BC (P < 0.05). AURKA and AURKB were specifically associated with several tumor-associated kinases (polo-like kinase 1 and cyclin-dependent kinase 1), miRNAs (miR-507 and miR-381), and E2F transcription factor 1. Moreover, AURKA and AURKB were correlated with immune cell infiltration. Functional enrichment analysis revealed that AURKA and AURKB were involved in the cell cycle signaling pathway, platinum drug resistance signaling pathway, ErbB signaling pathway, Hippo signaling pathway, and nucleotide-binding and oligomerization domain-like receptor signaling pathway.

Conclusions:
Aurora kinases AURKA and AURKB could be employed as novel prognostic biomarkers or promising therapeutic targets for BC.
Improving on polygenic scores across complex traits using select and shrink with summary statistics
Authors: Tyrer J.P , Peng P. , DeVries A.A , Gayther S.A , Jones M.R , Pharoah P.D 
Published: September 2022

Structured AbstractMotivationAs precision medicine advances, polygenic scores (PGS) have become increasingly important for clinical risk assessment. Many methods have been developed to create polygenic models with increased accuracy for risk prediction. Our select and shrink with summary statistics (S4) PGS method extends a previous method (polygenic risk score – continuous shrinkage (PRS-CS)) by using a continuous shrinkage prior on effect sizes with a selection strategy for including SNPs to create the best performing model.ResultsThe S4 method provides overall improved PGS accuracy for UK Biobank participants when compared to LDpred2 and PRS-CS across a variety of phenotypes with differing genetic architectures. Additionally, the S4 method has higher estimated PGS accuracy over LDpred2 in Finnish and Japanese populations. Thus, the S4 method represents an improvement in overall PGS accuracy across multiple phenotypes and increases the transferability of PGS across ancestries.Availability and ImplementationThe S4 program is freely available at https://github.com/jpt34/S4_programs.Supplementary informationSupplementary data [will be] available at Bioinformatics online.
Addressing the ‘coin flip model’ and the role of ‘process of care’ variables in the analysis of TREWS
Authors: Adams Roy , Henry Katharine E , Saria Suchi 
Published: September 2022

AbstractAcross two recent papers, Henry et al. (Nature Medicine, 2022) and Adams et al. (Nature Medicine, 2022) evaluated a deployed machine learning-based early warning system for sepsis, the Targeted Real-time Early Warning System (TREWS) for sepsis, finding that provider interactions with the tool were associated with reduced time to antibiotics and improved patient outcomes. In a subsequent commentary, Nemati et al. (medRxiv, 2022) assert that “the findings of Adams et al. are likely to be severely biased due to the failure to adjust for ‘processes of care’-related confounding factors.” In this response to Nemati et al., we argue that this conclusion is based on unrealistic assumptions about provider behavior that do not match the data reported in Adams et al. We further show that adjusting for ‘process of care’-related variables does not change the conclusions of Adams et al.
Long-Term Subcortical Electrophysiological Recordings Link Heightened Interhemispheric Subthalamic Beta Synchrony to Progression of Bradykinesia in Parkinson’s Disease
Authors: Wilkins Kevin B. , Kehnemouyi Yasmine M. , Petrucci Matthew N. , Anderson Ross W. , Parker Jordan E. , Trager Megan H. , Neuville Raumin S. , Koop Mandy M. , Velisar Anca , Blumenfeld Zack , Quinn Emma J. , Bronte-Stewart Helen M. 
Published: September 2022

AbstractBradykinesia is the major cardinal motor sign of Parkinson’s disease (PD), but its neural underpinnings are unclear. Although impairment in PD has been linked to heightened synchrony within the beta band (13-30 Hz) in the subthalamic nucleus (STN), bradykinesia appears to be the manifestation of a network-level dysfunction including the basal ganglia, motor cortex, and possibly cerebellum. The goal of this study was to examine whether changes in bradykinesia over time following long-term STN deep brain stimulation (DBS) are linked to local STN beta dynamics or a wider bilateral network dysfunction. Twenty-one individuals with Parkinson’s disease chronically implanted with sensing neurostimulators (Activa® PC+S, Medtronic, PLC) in the STN participated in a longitudinal ‘washout’ therapy study every three to six months for an average of three years. At each visit, participants were withdrawn from medication (12/24/48 hours) and had DBS turned off (>60 minutes) prior to completing a repetitive wrist-flexion extension task, a validated quantitative assessment of bradykinesia. Synchronized local field potentials and kinematic data were recorded. Local STN beta dynamics were investigated via STN beta power and burst duration, while interhemispheric beta synchrony was assessed with STN beta coherence. Higher beta power and interhemispheric STN beta coherence, but not burst duration, were significantly associated with worse bradykinesia. Bradykinesia was found to worsen off therapy over time. Interhemispheric STN beta coherence also increased over time, whereas beta power and burst duration remained stable. The observed percent change in bradykinesia was related to the percent change in interhemispheric beta coherence, with greater increases in synchrony associated with further worsening of bradykinesia. Together, these findings implicate interhemispheric beta synchrony as a neural correlate of the progression of bradykinesia following chronic STN DBS. This could imply the existence of a pathological bilateral network contributing to bradykinesia in PD.
Analysis of a Large Patient-Level Dataset to Predict Outcome of Treatment for Drug-Resistant Tuberculosis
Authors: Wang Qinlu , Gu Jingwen , Gabrielian Andrei , Rosenfeld Gabriel , Quiñones Mariam , Hurt Darrell E. , Rosenthal Alex 
Published: September 2022

ABSTRACTBACKGROUNDDrug-resistant (DR) tuberculosis treatment is challenging and frequently leads to poor outcomes. An international collaboration, the National Institute of Allergy and Infectious Diseases (NIAID) TB Portals develops, maintains, and supports a multi-national database of tuberculosis cases, with an emphasis on drug-resistant tuberculosis. Patient records include clinical, radiological, genomic, and socioeconomic features. Establishing factors associated with unsuccessful treatment may help optimize treatment for the most challenging infections.METHODSAssociation analysis and machine learning algorithms were applied to identify important factors associated with treatment outcome and predict the outcome for three patient cohorts, selected by drug resistance level representing 1575 patients in total. The predicted probabilities of poor treatment outcome from models were calibrated as a risk score ranging from 0 to 100 corresponding to confidence level of the model for treatment outcome.RESULTSThe features most associated with treatment success in all cohorts were body mass index (BMI), onset age, employment, education, smear-negative microscopy, and percent of abnormal volume in X-ray images, confirming previously reported findings, and identifying novel factors such as pathogen genomic markers.CONCLUSIONSThe identified features might help in establishing high-risk patients at the time of admission for tuberculosis treatment. This study integrates clinical, radiological, and pathogen genomics into a patient risk model, a way of determining risk through the application of machine learning on real-world data.
An enhanced method for calculating trends in infections caused by pathogens transmitted commonly through food
Authors: Weller Daniel L. , Ray Logan C. , Payne Daniel C. , Griffin Patricia M. , Hoekstra Robert M. , Rose Erica Billig , Bruce Beau B. 
Published: September 2022

AbstractThis brief methods paper is being published concomitantly with “Preliminary Incidence and Trends of Infections Caused by Pathogens Transmitted Commonly Through Food— Foodborne Diseases Active Surveillance Network, 10 U.S. Sites, 2016–2021” in Morbidity and Mortality Weekly Reports (MMWR). That article describes the application of the new model described here to analyze trends and evaluate progress towards the prevention of infection from enteric pathogens in the United States.
Interplay between Chronic Kidney disease, Hypertension, and Stroke: Insights from a Multivariable Mendelian Randomization Analysis
Authors: Kelly Dearbhla M. , Georgakis Marios K. , Franceschini Nora , Blacker Deborah , Viswanathan Anand , Anderson Christopher D. 
Published: September 2022

ABSTRACTBackground and ObjectivesChronic kidney disease (CKD) increases the risk of stroke, but the extent through which this association is mediated by hypertension is unknown. We leveraged large-scale genetic data to explore causal relationships between CKD, hypertension and cerebrovascular disease phenotypes.MethodsWe used data from genome-wide association studies (GWAS) of European ancestry to identify genetic proxies for kidney function (CKD diagnosis, estimated glomerular filtration rate [eGFR], and urinary albumin-to-creatinine ratio [UACR]), systolic blood pressure (SBP), and cerebrovascular disease (ischaemic stroke and its subtypes, and intracerebral haemorrhage [ICH). We then conducted univariable, multivariable and mediation Mendelian randomization (MR) analyses to investigate the effect of kidney function on stroke risk and the proportion of this effect mediated through hypertension.ResultsUnivariable Mendelian randomization revealed associations between genetically determined lower eGFR and risk of all stroke (OR per 1-log decrement in eGFR, 1.77; 95% CI, 1.31-2.40; p<0.001), ischaemic stroke (OR, 1.81; 95% CI, 1.31-2.51; p<0.001), and most strongly with large artery stroke (LAS) (OR, 3.00; 95% CI, 1.33-6.75; p=0.008). These associations remained significant in the multivariable MR analysis, controlling for SBP (OR, 1.98; 95% CI, 1.39-2.82; p<0.001 for AS; OR, 2.16; 95% CI, 1.48-3.17; p<0.001 for IS; OR, 4.35; 95% CI, 1.84-10.27; p=0.001 for LAS). with only a small proportion of the total effects mediated by SBP (10.5%, 6.6% and 7.8%, respectively). Total, direct and indirect effect estimates were similar across a number of sensitivity analyses.DiscussionOur results demonstrate an independent causal effect of impaired kidney function, as assessed by decreased eGFR, on stroke risk, particularly LAS, even when controlled for SBP. Targeted prevention of kidney disease could lower atherosclerotic stroke risk independent of hypertension.
Associations of habitual fish oil use with risk of SARS-CoV-2 infection and COVID-19-related outcomes in UK: national population based cohort study
Authors: Ma Yuying , Zhang Lijun , Zeng Ruijie , Luo Dongling , Jiang Rui , Wu Huihuan , Zhuo Zewei , Yang Qi , Li Jingwei , Leung Felix W , Wang Jinghua , Sha Weihong , Chen Hao 
Published: September 2022

AbstractObjectivesTo prospectively investigate the associations of habitual fish oil use with Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection, hospital admission, or mortality with Corona Virus Disease-19 (COVID-19) in a large-scale cohort.DesignProspective population-based cohort study.SettingUK Biobank.ParticipantsA total of 110 440 participants aged 37 -73 years who completed a questionnaire on supplement use, which included fish oil at baseline were enrolled between 2006 and 2010 and followed up until 2022.Main exposureAll participants filled out questionnaires about the habitual use of supplements, including fish oil.Main outcome measuresSARS-CoV-2 infection, COVID-19 hospital admission and COVID-19 mortality.ResultsAt baseline, 29 424 (26.6%) of the 110 440 participants reported habitual use of fish oil supplements. The multivariable adjusted hazard ratios for habitual users of fish oil versus non-users were 0.95 (0.93 to 0.98) for SARS-CoV-2 infection among participants with follow-up time less than 12.1 years but no significant associations were observed for participants with follow-up time more than 12.1 years. For COVID-19-related outcomes, the hazard ratios were 0.79 (95% confidence interval 0.71 to 0.88) for COVID-19 hospital admission and 0.72 (0.60 to 0.87) for COVID-19 mortality. For COVID-19-related outcomes, the association seemed to be stronger among those with longstanding illness. The Cox proportional hazard analysis after propensity-score matching yielded consistent results.ConclusionsHabitual fish oil supplement is associated with a lower risk of hospital admission and mortality with COVID-19, but not associated with SARS-CoV-2 infection in the population with more than 12.1 years of follow-up.
Multi-PGS enhances polygenic prediction: weighting 937 polygenic scores
Authors: Albiñana Clara , Zhu Zhihong , Schork Andrew J. , Ingason Andrés , Aschard Hugues , Brikell Isabell , Bulik Cynthia M. , Petersen Liselotte V. , Agerbo Esben , Grove Jakob , Nordentoft Merete , Hougaard David M. , Werge Thomas , Børglum Anders D. , Mortensen Preben Bo , McGrath John J. , Neale Benjamin M. , Privé Florian , Vilhjálmsson Bjarni J. 
Published: September 2022

AbstractThe predictive performance of polygenic scores (PGS) is largely dependent on the number of samples available to train the PGS. Increasing the sample size for a specific phenotype is expensive and takes time, but this sample size can be effectively increased by using genetically correlated phenotypes. We propose a framework to generate multi-PGS from thousands of publicly available genome-wide association studies (GWAS) with no need to individually select the most relevant ones. In this study, the multi-PGS framework increased prediction accuracy over single PGS for all included psychiatric disorders and other available outcomes, with prediction R2 increases of up to 9-fold for attention-deficit/hyperactivity disorder (ADHD) compared to a single PGS. We also generate multi-PGS for phenotypes without an existing GWAS and for case-case predictions, with up to 15-fold increases in prediction accuracy. We benchmark the multi-PGS framework against other methods and highlight its potential application to new emerging biobanks.
Epi-Clock: A sensitive platform to help understand pathogenic disease outbreaks and facilitate the response to future outbreaks of concern
Authors: Ji Cong , Shao Junbin (Jack) 
Published: September 2022

AbstractThe lack of virus fossilization precludes any references or ancestors for inferring evolutionary processes, and viruses have no cell structure, metabolism, or space to reproduce outside host cells. Most mutations yielding high pathogenicity become removed from the population, but adaptive mutations could be epidemically transmitted and fixed in the population. Therefore, determining how viruses originated, how they diverged and how an infectious disease was transmitted are serious challenges. To predict potential epidemic outbreaks, we tested our strategy, Epi-Clock, which applies the ZHU algorithm on different SARS-CoV-2 datasets before outbreaks to search for real significant mutational accumulation patterns correlated with the outbreak events. We imagine that specific amino acid substitutions are triggers for outbreaks. Surprisingly, some inter-species genetic distances ofCoronaviridaewere shorter than the intra-species distances, which may represent the intermediate states of different species or subspecies in the evolutionary history ofCoronaviridae. The insertions and deletions of whole genome sequences between different hosts were separately associated with new functions or turning points, clearly indicating their important roles in the host transmission and shifts ofCoronaviridae. Furthermore, we believe that non-nucleosomal DNA may play dominant roles in the divergence of different lineages of SARS-CoV-2 in different regions of the world because of the lack of nucleosome protection. We suggest that strong selective variation among different lineages of SARS-CoV-2 is required to produce strong codon usage bias, significantly appear in B.1.640.2 and B.1.617.2 (Delta). Interestingly, we found that an increasing number of other types of substitutions, such as those resulting from the hitchhiking effect, have accumulated, especially in the pre-breakout phase, even though some previous substitutions were replaced by other dominant genotypes. From most validations, we could accurately predict the potential pre-phase of outbreaks with a median interval of 5 days before. Using our pipeline, users may review updated information on the websitehttps://bioinfo.liferiver.com.cnwith easy registration.