bluuebunny/crossref_metadata_2025_split huggingface dataset:
Classification and Grading of Central Nervous System Tumors According to the World Health Organization 5th Edition
Authors: Yoda Rebecca A. , Cimino Patrick J. 
Published: November 2023

AbstractThe World Health Organization (WHO) released the 5th edition of its classification of central nervous system (CNS) tumors in 2021. Advances in the landscape of molecular tumor pathophysiology prompted major revisions to the previous edition released in 2016, some of which were first introduced by the Consortium to Inform Molecular and Practical Approaches to CNS Tumor Taxonomy—Not Official WHO (cIMPACT-NOW). The 2021 classification system integrates newly gained molecular insights to guide changes in tumor taxonomy and nomenclature, introduces several new types of tumors, and expands the use of molecular testing for diagnosis and grading, with a particular impact on adult-type and pediatric-type gliomas, ependymomas, and embryonal tumors. These updates aim to promote clear and accurate diagnoses, yield more reliable prognostic information, and enable the selection of optimal therapies. Familiarity with these changes will be of great importance for clinicians involved in the management of CNS tumor patients.
A Comparison of Resident Procedure Logs to Data Generated from an Electronic Health Record
Authors: Smith Moira E. , Layng Timothy A. 
Published: November 2023

Abstract
Background Emergency medicine (EM) residents are required to report procedural competency, often in a database separate from the electronic health record (EHR), in a redundant and time-consuming manner. We hypothesize that, if documented in an appropriate manner, procedural reports generated from an EHR reliably exceed those required by the Accreditation Council for Graduate Medical Education (ACGME) as well as those self-reported by EM residents.
Objectives (1) To compare the number of medical resuscitations recorded in the EHR to the number documented by residents in a separate database. (2) To compare the number of medical resuscitations recorded in the EHR to the ACGME requirement for graduation.
Methods Self-reported numbers of adult medical resuscitation by each resident of the previous three graduating classes of one EM program were compared with those generated from the EHR (Epic Systems, Verona, Wisconsin). There is no discrete documentation of medical resuscitations in the EHR. The ACGME describes a resuscitation as “…patient care for which prolonged physician attention is needed,” and thus, a surrogate was determined to be any patient for which the attending physician documented critical care time.
Results Data generated from the EHR reliably exceeded reported (mean [M] = 165.78, standard deviation [SD] = 45.97) and required (M = 188.09, SD = 30.93) numbers for adult medical resuscitations for 100% of the residents of the past three graduating classes (n = 32).
Conclusion In an accredited EM residency program that utilizes a modern EHR with a validated reporting functionality, residents should not need to redundantly log the number of adult medical resuscitations performed. Each resident in this study performed significantly more adult medical resuscitations than they logged and more than required by the ACGME, and thus, the time spent documenting these in a separate database was superfluous. Furthermore, this process increases resident awareness of proper documentation and data stewardship, two skills certain to prevail throughout their careers as modern EM physicians.
Exposure hazards from continuing use and removal of asbestos cement products
Authors: Gottesfeld Perry 
Published: November 2023

Abstract
Asbestos cement (AC) is used in water pipes, roofing, exterior siding, water tanks, cooling towers, and other applications. Although the global market for asbestos is slowly shrinking, AC products continue to dominate the remaining uses in many countries. This review focuses on asbestos exposures during the installation, maintenance, and ultimate removal of these materials. This assessment summarizes the available published and unpublished reports of airborne asbestos exposures during the cutting and removal of AC pipes, roofing, sheets, and cooling tower components and the range of exposures associated with the most common work practices. Task-based exposures from cutting AC pipe ranged from 11.3 to 129.0 f/cm3 with a mean exposure of 53.8 f/cm3. Cutting flat boards and corrugated roofing AC sheets resulted in exposures ranging from 1.3 to 130.0 f/cm3 with a mean of 24.0 f/cm3. Exposures for power saw cutting of AC sheets and pipes fit lognormal distributions and suggest that more than 86% of these tasks with AC sheet and 100% of the tasks with AC pipe exceed the US short-term Excursion Limit. Intermittent high exposures from the ongoing use of AC products in countries around the world are associated with an increased lifetime risk of asbestos-related disease.
Occupational risk assessment of glutaraldehyde through personal air monitoring in a hospital setting
Authors: Zambrano-Carrillo Maira Fernanda , Hernandez-Jerez Antonio F 
Published: November 2023

Abstract
Glutaraldehyde is a high-efficiency disinfectant that has been included in the protocols of some hospitals for controlling the spread of SARS-CoV-2, together with sodium hypochlorite and quaternary ammonium disinfectants. However, exposure has been poorly studied in workplace settings, despite the association between glutaraldehyde and respiratory diseases and skin conditions in exposed workers. This study evaluated the magnitude of exposure associated with the use of glutaraldehyde in healthcare workers across various work areas of a first level of Hospital-Based Care in Colombia. Workers were classified into similar exposure groups (SEGs) based on work areas and tasks performed, and airborne concentrations of glutaraldehyde were measured in different work areas of each SEG through direct monitoring. The 95th percentile of glutaraldehyde concentrations in all SEGs studied exceeded the TLV-C immediately after use. Cleaning workers and nurses had the highest exposures to glutaraldehyde. Results indicate that workers were overexposed and highlight the need to implement controls to reduce exposure. The high-exposure levels also raise the need to consider glutaraldehyde substitution and adequate use of personal protective equipment (PPE).
Responses of a common tropical epiphyte,Asplenium nidus, to changes in water and nutrient availability
Authors: Chen Xiao-Zhen , Hogan J Aaron , Wang Chiao-Ping , Wang Pei-Ling , Lin Teng-Chiu 
Published: November 2023

AbstractEpiphytes are highly dependent on atmospheric inputs of water and nutrients. Reductions in water availability associated with warming and climate change and continual atmospheric nitrogen (N) deposition can affect plant growth but few studies have evaluated the effects of changes in both water and nutrient availabilities on epiphytes. We experimentally tested whether epiphyte growth is more water- or nutrient-limited, if nutrient limitation was stronger for nitrogen or phosphorus, and whether nutrient limitation interacts with water availability. We applied watering (high and low) and nutrient addition (control, +N, +P, +N+P) treatments to greenhouse-grown Asplenium nidus, a common epiphytic fern found in many tropical and subtropical wet forests. We measured leaf area production and leaf elemental concentrations to assess how A. nidus growth and physiology respond to changes in water and nutrient availabilities. We found that leaf growth of A. nidus was more affected by water availability than nutrient addition and the effect of adding nutrients was not fully realized under low-water availability. Among the different nutrient treatments, +N+P had the greatest effects on A. nidus growth and physiology in both watering treatments. Watering treatment changed leaf elemental concentrations but not their ratios (i.e. C:N and N:P). Nutrient addition altered C:N and N:P ratios and increased the concentration of the added elements in leaves, with more pronounced increases in the high-watering treatment. We conclude that the growth of A. nidus is more water- than nutrient-limited. When nutrient limitation occurs (i.e. under high-water availability), nutrient co-limitation is stronger than limitation by N or P alone. This result taken together with studies of other epiphytes suggests greater water than nutrient limitation is likely widespread among epiphytic plants. The limited effects of nutrient addition in the low-water treatment suggest that the effect of atmospheric N deposition on epiphyte growth will be limited when water availability is low.
Are Textbooks Authentic From a Developmental Perspective? A Corpus Analysis of Word Use in Chinese Textbooks in US Universities
Authors: Yan Xun , Lei Yuyun , Shih Chilin 
Published: November 2023

Abstract
There is a prevailing belief that second language (L2) textbooks should strive for authenticity, aiming to accurately and reliably represent natural language use. However, assessing the authenticity of language textbooks is not a straightforward task, as it requires both a comparison between instructional texts and real-world language use and a consideration of the comparison within the broader context of language development. This study employs a corpus-based approach to examine word use in 31 widely used commercial textbooks across different proficiency levels, which serve as the primary resource for teaching, learning, and assessment in Chinese language programs at US universities. Using hierarchical cluster analysis, Zipf’s law analysis, and descriptive statistics, we found supportive evidence for the authenticity of word use in Chinese textbooks from a developmental perspective. Specifically, our findings reveal a nuanced gradation in the distribution of words across proficiency levels within these Chinese textbooks. Moreover, as proficiency levels increase, there is a discernible register shift in word use from spoken to written discourse. These observations carry significant implications for the utility of textbooks in Chinese language programs, particularly in the realms of instruction and assessment.
Normative Data Estimation in Neuropsychological Tests: A Systematic Review
Authors: delCacho-Tena Ana , Christ Bryan R , Arango-Lasprilla Juan Carlos , Perrin Paul B , Rivera Diego , Olabarrieta-Landa Laiene 
Published: November 2023

Abstract

Objective
To quantify the evolution, impact, and importance of normative data (ND) calculation by identifying trends in the research literature and what approaches need improvement.

Methods
A PRISMA-guideline systematic review was performed on literature from 2000 to 2022 in PubMed, Pub-Psych, and Web of Science. Inclusion criteria included scientific articles about ND in neuropsychological tests with clear data analysis, published in any country, and written in English or Spanish. Cross-sectional and longitudinal studies were included. Bibliometric analysis was used to examine the growth, productivity, journal dispersion, and impact of the topic. VOSViewer compared keyword co-occurrence networks between 1952–1999 and 2000–2022.

Results
Four hundred twelve articles met inclusion and exclusion criteria. The most studied predictors were age, education, and sex. There were a greater number of studies/projects focusing on adults than children. The Verbal Fluency Test (12.7%) was the most studied test, and the most frequently used variable selection strategy was linear regression (49.5%). Regression-based approaches were widely used, whereas the traditional approach was still used. ND were presented mostly in percentiles (44.2%). Bibliometrics showed exponential growth in publications. Three journals (2.41%) were in the Core Zone. VOSViewer results showed small nodes, long distances, and four ND-related topics from 1952 to 1999, and there were larger nodes with short connections from 2000 to 2022, indicating topic spread.

Conclusions
Future studies should be conducted on children’s ND, and alternative statistical methods should be used over the widely used regression approaches to address limitations and support growth of the field.
The nucleolar protein NIFK accelerates the progression of colorectal cancer via activating MYC pathway
Authors: Xia Tingting , Wang Bin , Sun Lingling 
Published: November 2023

ABSTRACT
This study aimed to explore the function of nucleolar protein interacting with the FHA domain of MKI67 (NIFK) on colorectal cancer (CRC) and its associated molecular mechanisms. NIFK was upregulated in CRC tissues and cells. NIFK silencing resulted in reduced cell growth and metastasis, as well as in promoted apoptosis in CRC cells. Moreover, NIFK silencing was also confirmed to inhibit lipid accumulation and decrease fatty acid synthesis via downregulating lipogenic enzymes in CRC cells. Gene set enrichment analysis and western blot co-verified that NIFK silencing inhibited MYC proto-oncogene, bHLH transcription factor (MYC) pathway in CRC cells. In addition, we also revealed that NIFK silencing function on cell growth, apoptosis, metastasis, and fatty acid metabolism in CRC might be cancelled after c-MYC overexpression. Silencing NIFK could inhibit cell growth and metastasis, and promoted apoptosis, as well as regulated fatty acid metabolism by inhibiting MYC pathway in CRC.
PEDL+: protein-centered relation extraction from PubMed at your fingertip
Authors: Weber Leon , Barth Fabio , Lorenz Leonie , Konrath Fabian , Huska Kirsten , Wolf Jana , Leser Ulf 
Published: November 2023

Abstract

Summary
Relation extraction (RE) from large text collections is an important tool for database curation, pathway reconstruction, or functional omics data analysis. In practice, RE often is part of a complex data analysis pipeline requiring specific adaptations like restricting the types of relations or the set of proteins to be considered. However, current systems are either non-programmable web sites or research code with fixed functionality. We present PEDL+, a user-friendly tool for extracting protein–protein and protein–chemical associations from PubMed articles. PEDL+ combines state-of-the-art NLP technology with adaptable ranking and filtering options and can easily be integrated into analysis pipelines. We evaluated PEDL+ in two pathway curation projects and found that 59% to 80% of its extractions were helpful.

Availability and implementation
PEDL+ is freely available at https://github.com/leonweber/pedl.
PhasiHunter: a robust phased siRNA regulatory cascade mining tool based on multiple reference sequences
Authors: Feng Zerong , Feng Jiejie , Zhang Baoyi , Fei Yuhan , Zhang Hongsheng , Huang Ji 
Published: November 2023

Abstract

Summary
In recent years, phased small interfering RNA has been found to play crucial roles in many biological processes in plants. However, efficiently predicting phasiRNA regulatory cascades with computational methods is still challenging. Here, we introduce PhasiHunter, a phasiRNA regulatory network prediction tool that has several distinctive features compared to existing tools: (i) PhasiHunter employs two major phasiRNA prediction algorithms, namely phase score and hypergeometric distribution-based methods, to ensure the integrity and accuracy of prediction; (ii) PhasiHunter can identify phasiRNAs and their regulatory networks based on multiple reference sequences and the predicted results can be automatically integrated; (iii) PhasiHunter can efficiently identify the phasiRNAs generated through alternative splicing events; and (iv) the excellent data structure and parallel computing architecture allow PhasiHunter to predict phasiRNAs and their regulatory pathways with high efficiency.

Availability and implementation
PhasiHunter is an open-source tool that is available at https://github.com/HuangLab-CBI/PhasiHunter.
Congenital myasthenic syndromes: a retrospective natural history study of respiratory outcomes in a single centre
Authors: Poulos Jordan , Samuels Martin , Palace Jacqueline , Beeson David , Robb Stephanie , Ramdas Sithara , Chan Samantha , Munot Pinki 
Published: November 2023

Abstract
Respiratory problems are a major cause of morbidity and mortality in patients with congenital myasthenic syndromes, a rare heterogeneous group of neuromuscular disorders caused by genetic defects impacting the structure and function of the neuromuscular junction. Recurrent, life-threatening episodic apnoea in early infancy and childhood and progressive respiratory failure requiring ventilation are features of certain genotypes of congenital myasthenic syndromes. Robb et al. published empirical guidance on respiratory management of the congenital myasthenic syndromes, but other than this workshop report, there are little published longitudinal natural history data on respiratory outcomes of these disorders. We report a retrospective, single-centre study on respiratory outcomes in a cohort of 40 well characterized genetically confirmed cases of congenital myasthenic syndromes, including 10 distinct subtypes (DOK7, COLQ, RAPSN, CHAT, CHRNA1, CHRNG, COL13A1, CHRNE, CHRNE fast channel syndrome and CHRNA1 slow channel syndrome), with many followed up over 20 years in our centre. A quantitative and longitudinal analysis of key spirometry and sleep study parameters, as well as a description of historical hospital admissions for respiratory decompensation, provides a snapshot of the respiratory trajectory of congenital myasthenic syndrome patients based on genotype.
Long non-coding RNA NRAV in the 12q24.31 risk locus drives gastric cancer development through glucose metabolism reprogramming
Authors: Zhang Yan , Gao Yun , Li Fengyuan , Qi Qi , Li Qian , Gu Yuanliang , Zheng Zhonghua , Hu Beiping , Wang Tianpei , Zhang Erbao , Xu Hao , Liu Li , Tian Tian , Jin Guangfu , Yan Caiwang 
Published: November 2023

Abstract
Long non-coding RNAs (lncRNAs) serve as vital candidates to mediate cancer risk. Here, we aimed to identify the risk single-nucleotide polymorphisms (SNPs)-induced lncRNAs and to investigate their roles in gastric cancer (GC) development. Through integrating the differential expression analysis of lncRNAs in GC tissues and expression quantitative trait loci analysis in normal stomach tissues and GC tissues, as well as genetic association analysis based on GC genome-wide association studies and an independent validation study, we identified four lncRNA-related SNPs consistently associated with GC risk, including SNHG7 [odds ratio (OR) = 1.16, 95% confidence interval (CI): 1.09–1.23], NRAV (OR = 1.11, 95% CI: 1.05–1.17), LINC01082 (OR = 1.16, 95% CI: 1.08–1.22) and FENDRR (OR = 1.16, 95% CI: 1.07–1.25). We further found that a functional SNP rs6489786 at 12q24.31 increases binding of MEOX1 or MEOX2 at a distal enhancer and results in up-regulation of NRAV. The functional assays revealed that NRAV accelerates GC cell proliferation while inhibits GC cell apoptosis. Mechanistically, NRAV decreases the expression of key subunit genes through the electron transport chain, thereby driving the glucose metabolism reprogramming from aerobic respiration to glycolysis. These findings suggest that regulating lncRNA expression is a crucial mechanism for risk-associated variants in promoting GC development.
Sex- and age-based differences in fetal and early childhood hippocampus maturation: a cross-sectional and longitudinal analysis
Authors: Nichols Emily S , Grace Michael , Correa Susana , de Vrijer Barbra , Eagleson Roy , McKenzie Charles A , de Ribaupierre Sandrine , Duerden Emma G 
Published: November 2023

Abstract
The hippocampus, essential for cognitive and affective processes, develops exponentially with differential trajectories seen in girls and boys, yet less is known about its development during early fetal life until early childhood. In a cross-sectional and longitudinal study, we examined the sex-, age-, and laterality-related developmental trajectories of hippocampal volumes in fetuses, infants, and toddlers associated with age. Third trimester fetuses (27–38 weeks’ gestational age), newborns (0–4 weeks’ postnatal age), infants (5–50 weeks’ postnatal age), and toddlers (2–3 years postnatal age) were scanned with magnetic resonance imaging. A total of 133 datasets (62 female, postmenstrual age [weeks] M = 69.38, SD = 51.39, range = 27.6–195.3) were processed using semiautomatic segmentation methods. Hippocampal volumes increased exponentially during the third trimester and the first year of life, beginning to slow at approximately 2 years. Overall, boys had larger hippocampal volumes than girls. Lateralization differences were evident, with left hippocampal growth beginning to plateau sooner than the right. This period of rapid growth from the third trimester, continuing through the first year of life, may support the development of cognitive and affective function during this period.
Prognostic impact of acute decompensated heart failure in patients with heart failure with mildly reduced ejection fraction
Authors: Schmitt Alexander , Schupp Tobias , Reinhardt Marielen , Abel Noah , Lau Felix , Forner Jan , Ayoub Mohamed , Mashayekhi Kambis , Weiß Christel , Akin Ibrahim , Behnes Michael 
Published: November 2023

Abstract

Aims
This study sought to determine the prognostic impact of acute decompensated heart failure (ADHF) in patients with heart failure with mildly reduced ejection fraction (HFmrEF). ADHF is a major complication in patients with heart failure (HF). However, the prognostic impact of ADHF in patients with HFmrEF has not yet been clarified.

Methods and results
Consecutive patients hospitalized with HFmrEF (i.e. left ventricular ejection fraction 41–49% and signs and/or symptoms of HF) were retrospectively included at one institution from 2016 to 2022. The prognosis of patients with ADHF was compared with those without (i.e. non-ADHF). The primary endpoint was long-term all-cause mortality. Secondary endpoints included in-hospital all-cause mortality and long-term HF-related re-hospitalization. Kaplan–Meier, multivariable Cox proportional regression, and propensity score matched analyses were performed for statistics. Long-term follow-up was set at 30 months. A total of 2184 patients with HFmrEF were included, ADHF was present in 22%. The primary endpoint was higher in ADHF compared to non-ADHF patients with HFmrEF [50% vs. 26%; hazard ratio (HR) = 2.269; 95% confidence interval (CI) 1.939–2.656; P = 0.001]. Accordingly, the secondary endpoint of long-term HF-related re-hospitalization was significantly higher (27% vs. 10%; HR = 3.250; 95% CI 2.565–4.118; P = 0.001). A history of previous ADHF before the index hospitalization was associated with higher rates of long-term HF-related re-hospitalization (42% vs. 23%; HR = 2.073; 95% CI 1.420–3.027; P = 0.001), but not with long-term all-cause mortality (P = 0.264).

Conclusion
ADHF is a common finding in patients with HFmrEF associated with an adverse impact on long-term prognosis.