bluuebunny/crossref_metadata_2025_split huggingface dataset:
Learning From Student Experience
Authors: Bagnasco Annamaria , Zanini Milko , Catania Gianluca , Aleo Giuseppe , Turunen Hannele , Tella Susanna , Sara-Aho Arja , Vizcaya-Moreno Maria Flores , Pérez-Cañaveras Rosa María , Myhre Kristin , Ringstad Øystein , Ekman Gerd Anna-Stina , Porras Jari , Rossi Silvia , Morey Sarah , Johnsen Lasse , Patterson Lucy , Larkin Valerie , Azimirad Mina , Khakurel Jayden , Dasso Nicoletta , Haatainen Kaisa , Timmins Fiona , Wilson-Menzfeld Gemma , Sasso Loredana , Pearson Pauline , Steven Alison 
Published: December 2021

Background:
Patient safety is a global concern. Learning to provide safe, high-quality care is core to nursing education.

Problem:
Students are exposed to diverse clinical practices, and experiences may vary between placements and across countries. Student experience is seldom used as an educational resource.

Approach:
An international, European Union-funded project, Sharing Learning from Practice for Patient Safety (SLIPPs), aimed to develop an innovative online educational package to assist patient safety learning. Based on student reported data and educational theory, multiple elements were iteratively developed by a multicountry, multidisciplinary group.

Outcomes:
The educational package is freely available on the SLIPPs Web site. Materials include a student reporting and reflection tool, virtual seminars, student reports data set, pedagogical game, high-fidelity simulation scenarios, scenario development and use guidelines, debriefing session model, and videos of simulations already performed.

Conclusions:
E-learning enables removal of physical barriers, allowing educators, professionals, and students from all over the world to collaborate, interact, and learn from each other.
A Case of Possible Chronic Traumatic Encephalopathy and Alzheimer’s Disease in an Ex-Football Player
Authors: Fesharaki-Zadeh Arman 
Published: December 2021

Introduction:
Chronic traumatic encephalopathy (CTE) is a debilitating neurodegenerative disease, which is often the sequelae of repetitive head trauma. Although the definitive diagnosis of CTE is made postmortem, there are proposed clinical algorithms aimed at identifying characteristic features of CTE, based on a combination of clinical history, serum, cerebrospinal fluid and neuroimaging biomarkers. There are promising new advances in positron emission tomography neuroimaging, including tau specific ligands, which will potentially provide a robust assessment as well as an exploratory tool of the disease semiology and progression.

Case Report:
Here is a unique case of an ex-football player, who suffered multiple prior traumatic brain injuries throughout his career, and presented to our clinic with significant episodic memory, visuospatial and executive functioning deficits, as well as comorbid mood and behavioral changes in the absence of prior psychiatric history or substance use. His clinical presentation and biomarkers were consistent with a suspected diagnosis of CTE comorbid with Alzheimer disease, which comprises a significant portion of overall CTE cases.

Conclusion:
This case report presents a patient with a subtle case of dementia, which could be easily mistaken for behavioral variant frontotemporal dementia or primary progressive aphasia. This in turn highlights the importance of detailed longitudinal history taking, as well as rigorous biomarker studies.
Practitioners Assess Achievements and Challenges of Nonfatal Injury Surveillance
Authors: Costich Julia F. , Vos Sarah C. , Quesinberry Dana B. 
Published: December 2021

Objective:
Injury surveillance relies on data coded for administrative rather than epidemiological accuracy. The Centers for Disease Control and Prevention (CDC) established the 5-year Surveillance Quality Improvement (SQI) initiative to advance consensus and methodology for injury epidemiology reporting and analysis. Evaluation of the positive predictive value of the CDC's injury surveillance definitions based on International Classification of Diseases, Ninth Revision, Clinical Modification (ICD-9-CM) and International Classification of Diseases, Tenth Revision, Clinical Modification (ICD-10-CM) coding in designated injury categories comprised much of the SQI initiative's work. The goal of the current study is to identify achievements and challenges in SQI as articulated by experienced injury epidemiology practitioners who participated in the CDC-funded SQI initiative.

Design, Setting, and Participants:
We conducted semistructured interviews with 12 representatives of state and federal public health agencies who had participated extensively in the SQI initiative. The interviews were transcribed and coded using NVivo qualitative analysis software. Initial coding of the data involved both in vivo coding (using the words of participants) and coding of a priori themes.

Main Outcome Measures:
Qualitative analysis identified 2 overarching themes, variability among states and observations on the science of injury surveillance.

Results:
Within the 2 broad themes, the respondents provided valuable insights regarding access to medical records, case definition validation, unique contributions of medical record abstracting, variations in the practice of medical coding, and the potential for use of data from medical record reviews in other injury-related areas.

Conclusions:
The contributions of the SQI initiative have provided valuable insights into ICD-10-CM case definitions for national injury surveillance. Challenges remain with regard to data access and quality with ongoing reliance on administrative datasets for injury surveillance.
The prognostic and diagnostic value of intraleukocytic malaria pigment: an individual patient data pooled meta-analysis of 32,000 patients with severe falciparum malaria in Africa and Asia
Authors: Srinamon Ketsanee , Watson James A , Silamut Kamolrat , Intharabut Benjamas , Phu Nguyen Hoan , Diep Pham Thi , Lyke Kirsten E , Fanello Caterina , Seidlein Lorenz von , Chotivanich Kesinee , Dondorp Arjen M , Day Nicholas PJ , White Nicholas J 
Published: December 2021

AbstractSevere falciparum malaria is a major cause of death in tropical countries, particularly in African children. Accurate diagnosis and prognostic assessment are critical to clinical management. In 6,027 prospectively studied patients diagnosed with severe malaria we assessed the prognostic value of peripheral blood film counts of malaria pigment containing polymorphonu-clear leukocytes (PMNs) and monocytes. We combined these results with previously published data and show, in an individual patient data meta-analysis (n=32,035), that the proportion of pigment containing PMNs is predictive of in-hospital mortality. In African children the proportion of pigment containing PMNs is a strong indicator that the primary diagnosis is severe malaria, and it adds to the prognostic assessment from simple bedside examination, and to the conventional malaria parasite count. Microscopy assessment of pigment containing PMNs is simple and rapid, and should be performed in all patients hospitalised with suspected severe malaria.
Redox regulation of PTPN22 affects the severity of T cell dependent autoimmune inflammation
Authors: James Jaime , Chen Yifei , Hernandez Clara M. , Forster Florian , Dagnell Markus , Cheng Qing , Saei Amir A. , Gharibi Hassan , Lahore Gonzalo Fernandez , Åstrand Annika , Malhotra Rajneesh , Malissen Bernard , Zubarev Roman A. , Arnér Elias S.J. , Holmdahl Rikard 
Published: December 2021

AbstractChronic autoimmune diseases are associated with mutations in PTPN22, a modifier of T cell receptor signaling. As with all protein tyrosine phosphatases the activity of PTPN22 is redox regulated, but if or how such regulation can modulate inflammatory pathways in vivo is not known. To determine this, we created a mouse with a cysteine-to-serine mutation at position 129 in PTPN22 (C129S), a residue proposed to alter the redox regulatory properties of PTPN22 by forming a disulfide with the catalytic C227 residue. The C129S mutant mouse showed a stronger T cell-dependent inflammatory response and development of T cell dependent autoimmune arthritis due to enhanced TCR signaling and activation of T cells, an effect neutralized by a mutation in Ncf1, a component of the NOX2 complex. Activity assays with purified proteins suggest that the functional results can be explained by an increased sensitivity to oxidation of the C129S mutated PTPN22 protein. We also observed that the disulfide of native PTPN22 can be directly reduced by the thioredoxin system, while the C129S mutant lacking this disulfide was less amenable to reductive reactivation. In conclusion, we show that PTPN22 functionally interacts with Ncf1 and is regulated by oxidation via the non-catalytic C129 residue and oxidation-prone PTPN22 leads to increased severity in the development of T cell-dependent autoimmunity.Significance statementA hitherto unstudied aspect of PTPN22 biology is its regulation by cell redox states. Here we created a mouse model where PTPN22 was mutated to respond differentially to redox levels in vivo and found that PTPN22 function is regulated by reactive oxygen species and that redox regulation of PTPN22 impacts T-cell-dependent autoimmune inflammation.
Harmonizing Functional Connectivity Reduces Scanner Effects in Community Detection
Authors: Chen Andrew A. , Srinivasan Dhivya , Pomponio Raymond , Fan Yong , Nasrallah Ilya M. , Resnick Susan M. , Beason-Held Lori L. , Davatzikos Christos , Satterthwaite Theodore D. , Bassett Dani S. , Shinohara Russell T. , Shou Haochang 
Published: December 2021

AbstractCommunity detection on graphs constructed from functional magnetic resonance imaging (fMRI) data has led to important insights into brain functional organization. Large studies of brain community structure often include images acquired on multiple scanners across different studies. Differences in scanner can introduce variability into the downstream results, and these differences are often referred to as scanner effects. Such effects have been previously shown to significantly impact common network metrics. In this study, we identify scanner effects in data-driven community detection results and related network metrics. We assess a commonly employed harmonization method and propose new methodology for harmonizing functional connectivity that leverage existing knowledge about network structure as well as patterns of covariance in the data. Finally, we demonstrate that our new methods reduce scanner effects in community structure and network metrics. Our results highlight scanner effects in studies of brain functional organization and provide additional tools to address these unwanted effects. These findings and methods can be incorporated into future functional connectivity studies, potentially preventing spurious findings and improving reliability of results.
DARTS: an Algorithm for Domain-Associated RetroTransposon Search in Genome Assemblies
Authors: Biryukov Mikhail , Ustyantsev Kirill 
Published: December 2021

AbstractRetrotransposons comprise a substantial fraction of eukaryotic genomes reaching the highest proportions in plants. Therefore, identification and annotation of retrotransposons is an important task in studying regulation and evolution of plant genomes. A majority of computational tools for mining transposable elements (TEs) are designed for subsequent genome repeat masking, often leaving aside the element lineage classification and its protein domain composition. Additionally, studies focused on diversity and evolution of a particular group of retrotransposons often require substantial customization efforts from researchers to adapt existing software to their needs. Here, we developed a computational pipeline to mine sequences of protein-coding retrotransposons based on the sequences of their conserved protein domains - DARTS. Using the most abundant group of TEs in plants - long terminal repeat (LTR) retrotransposons (LTR-RTs), we show that DARTS has radically higher sensitivity of LTR-RTs identification compared to a widely accepted LTRharvest tool. DARTS can be easily customized for specific user needs. As a result, DARTS returns a set of structurally annotated nucleotide and amino acid sequences which can be readily used in subsequent comparative and phylogenetic analyses. DARTS should facilitate researchers interested in discovery and in-detail analysis of diversity and evolution of retrotransposons, LTR-RTs, and other protein-coding TEs.
Cortical tracking of voice pitch in the presence of multiple speakers depends on selective attention
Authors: Brodbeck Christian , Simon Jonathan Z. 
Published: December 2021

AbstractVoice pitch carries linguistic as well as non-linguistic information. Previous studies have described cortical tracking of voice pitch in clean speech, with responses reflecting both pitch strength and pitch value. However, pitch is also a powerful cue for auditory stream segregation, especially when competing streams have pitch differing in fundamental frequency, as is the case when multiple speakers talk simultaneously. We therefore investigated how cortical speech pitch tracking is affected in the presence of a second, task-irrelevant speaker. We analyzed human magnetoencephalography (MEG) responses to continuous narrative speech, presented either as a single talker in a quiet background, or as a two-talker mixture of a male and a female speaker. In clean speech, voice pitch was associated with a right-dominant response, peaking at a latency of around 100 ms, consistent with previous EEG and ECoG results. The response tracked both the presence of pitch as well as the relative value of the speaker’s fundamental frequency. In the two-talker mixture, pitch of the attended speaker was tracked bilaterally, regardless of whether or not there was simultaneously present pitch in the speech of the irrelevant speaker. Pitch tracking for the irrelevant speaker was reduced: only the right hemisphere still significantly tracked pitch of the unattended speaker, and only during intervals in which no pitch was present in the attended talker’s speech. Taken together, these results suggest that pitch-based segregation of multiple speakers, at least as measured by macroscopic cortical tracking, is not entirely automatic but strongly dependent on selective attention.
Impostor Phenomenon in the Nutrition and Dietetics Profession: An Online Cross-Sectional Survey
Authors: Landry Matthew J. , Bailey Dylan A. , Lee MinJi , Van Gundy Samuel , Ervin Audrey 
Published: December 2021

AbstractBackgroundImpostor phenomenon (IP) (also known as impostor syndrome) describes high-achieving individuals who, despite their objective successes, fail to internalize their accomplishments and have persistent self-doubt and fear of being exposed as a fraud or impostor. Despite robust literature describing the effects of IP in other health care professions, there is an absence of research within the nutrition and dietetics profession.ObjectiveTo assess the prevalence and predictors of IP within the nutrition and dietetics students and practitioners.DesignAn online cross-sectional survey was conducted.Participants/setting1,015 students, dietetic interns, and currently practicing and retired nutrition and dietetic technicians registered, and registered dietitian nutritionists provided complete responses.Main outcome measuresImpostor phenomenon was assessed with the Clance Impostor Phenomenon Scale (CIPS). Self-reported Job satisfaction and well-being were assessed using validated scales.Statistical analysesDescriptive statistics were summarized and reported using frequency counts and percentages. Unadjusted logistic regression models were used to assess the relationship between IP and sociodemographic outcomes, job satisfaction, and well-being.ResultsRespondents were primarily female, non-Hispanic White, and practicing dietitians. The average CIPS score was 66.0 ± 16.3 (range 22-99). 64% of survey respondents (n=655) experience intense or frequent IP and 62% (n=628) had a CIPS score ≥62. Older age, educational attainment, professional level, and membership in Academy groups were associated with lower IP scores. Greater Social media use was associated with higher IP scores. Job satisfaction and overall well-being were inversely correlated with impostor phenomenon (p<0.001).ConclusionsFindings from an online survey suggest that a majority of nutrition and dietetics students and practitioners experience IP. Our results reinforce the need to recognize and address this issue by raising awareness, using early prevention methods, and supporting individuals who are younger and/or new to the profession.
Predicted CTL responses from pressured epitopes in SARS-CoV-2 correlate with COVID-19 severity
Authors: Rao Vishal , Banerjee Ushashi , Sambaturu Narmada , Chunchanur Sneha , Ambica R , Chandra Nagasuma 
Published: December 2021

AbstractHeterogeneity in susceptibility among individuals to COVID-19 has been evident through the pandemic worldwide. Protective cytotoxic T lymphocyte (CTL) responses generated against pathogens in certain individuals are known to impose selection pressure on the pathogen, thus driving emergence of new variants. In this study, we focus on the role played by host genetic heterogeneity in terms of HLA-genotypes in determining differential COVID-19 severity in patients and dictating mechanisms of immune evasion adopted by SARS-CoV-2 due to the imposed immune pressure at global and cohort levels. We use bioinformatic tools for CTL epitope prediction to identify epitopes under immune pressure. Using HLA-genotype data of COVID-19 patients from a local cohort, we observe that asymptomatic individuals recognize a larger number of pressured epitopes which could facilitate emergence of mutations at these epitopic regions to overcome the protectivity they offer to the host. Based on the severity of COVID-19, we also identify HLA-alleles and epitopes that offer higher protectivity against severe disease in infected individuals. Finally, we shortlist a set of pressured and protective epitopes that represent regions in the viral proteome that are under higher immune pressure across SARS-CoV-2 variants due to the protectivity they offer. Identification of such epitopes could potentially aid in prediction of indigenous variants of SARS-CoV-2 and other pathogens, defined by the distribution of HLA-genotypes among members of a population.
Systematic review of cardiac adverse effects in children and young people under 18 years of age after SARS-CoV-2 vaccination
Authors: Cruz Joana , Duret Amedine , Harwood Rachel , Fraser Lorna K. , Jones Caroline B. , Ward Joseph , Whittaker Elizabeth , Kenny Simon E. , Viner Russell M. 
Published: December 2021

AbstractBackgroundReports of myocarditis and pericarditis following vaccination with mRNA vaccines for SARS-CoV-2 have occurred after countries began vaccinating adolescents. We undertook a systematic review of cardiac adverse effects associated with SARS-CoV-2 vaccine in children and young people (CYP)< 18 years.MethodsSystematic review with protocol prospectively registered with PROSPERO (CRD42021275380).Six electronic databases were searched from 1 December 2019 to 14 September 2021. Eligible studies were those reporting on CYP with reported or proven myocarditis, pericarditis and/or myopericarditis associated with vaccination against SARS-CoV-2. We summarized findings across all clinical cases reported in case report / case series studies. As a number of studies reported data from two publicly available vaccine surveillance systems, we updated estimates of reporting rates for cardiac adverse events up to 31 October for the US Vaccine Adverse Event Reporting System (VAERS) and 13 November for EudraVigilance covering European Union and European Economic Area (EUEA) countries.ResultsTwenty-one studies were included from 338 identified records. Seventeen were case reports/series describing a total of 127 CYP. Three studies described reporting rates from passive surveillance databases (VAERS, EudraVigilance, and the WHO VigiBase) and one described 22 cases from the US Vaccine Safety Datalink (VSD).Clinical series reported that 99.2% presented with chest pain, 100% had raised troponin and 73.8% had an abnormal ECG. Cardiovascular magnetic resonance (CMR) in 91 cases identified myocardial injury in 61.5%, with 90.1% showing late gadolinium enhancement. NSAIDs were the most common treatment (76.0%).One US dataset (VSD) estimated a significant excess of 29.6 events per million vaccine doses across both sexes and doses. There were 1129 reports of myocarditis and 358 reports of pericarditis from across the USA and EU/EEA. The VAERS reporting rate per million for myocarditis was 12.4 for boys and 1.4 for girls after the first dose, and 49.6 for boys and 6.1 for girls after the second dose. There was a marked trend for VAERS reporting to be highest soon after initiation of the vaccine schedule, suggesting reporting bias.ConclusionsCardiac adverse effects are very rare after mRNA vaccination for COVID-19 in CYP <18 years. The great majority of cases are mild and self-limiting without significant treatment. No data are yet available on children under 12 years. Larger detailed longitudinal studies are urgently needed from active surveillance sources.
Global Assessment of IRF8 as a Novel Cancer Biomarker
Authors: McQuaid Daniel C. , Panse Gauri , Wang Wei-Lien , Katz Samuel G. , Xu Mina L. 
Published: December 2021

AbstractInterferon regulatory factor 8 (IRF8) is a member of the IRF family that is specific to the hematopoietic cell and is involved in regulating the development of human monocytic and dendritic-lineage cells, as well as B cells. Since its utility as a sensitive and specific monoblast marker in the context of acute monocytic leukemias has been recently demonstrated, we hypothesized that it may also be useful as a novel immunohistochemical marker in myeloid sarcomas and blastic plasmacytoid dendritic cell neoplasms (BPDCN) with respect to their differential diagnoses. In this retrospective study, we analyzed the IHC expression pattern of IRF8 in 385 patient samples across 30 types of cancers, referenced to their mRNA expression data available through TCGA. In addition, we assessed IRF8 in 35 myeloid sarcomas, and 13 BPDCNs. Twenty-four of 35 cases of myeloid sarcomas (68.5%) showed positivity for IRF8, with six cases (17.1%) demonstrating IRF8 expression in the absence of CD34 and MPO. All 13 of 13 BPDCNs (100%) showed strong uniform expression of IRF8 and was occasionally more definitive than CD123. IRF8 was negative in all desmoplastic small round cell tumors, Ewing sarcomas, synovial sarcomas, and undifferentiated pleomorphic sarcomas, as well as all epithelial malignancies tested except for 2 triple negative breast cancers that showed subset weak staining. In conclusion, IRF8 is a novel marker helpful in identifying extranodal hematopoietic tumors that can otherwise be difficult to diagnose given the broad differential diagnoses and frequent loss of more common lineage-defining markers.