bluuebunny/crossref_metadata_2025_split huggingface dataset:
Revealing third-order interactions through the integration of machine learning and entropy methods in genomic studies
Authors: Yaldız Burcu , Erdoğan Onur , Rafatov Sevda , Iyigün Cem , Aydın Son Yeşim 
Published: January 2024

Abstract
Background
Non-linear relationships at the genotype level are essential in understanding the genetic interactions of complex disease traits. Genome-wide association Studies (GWAS) have revealed statistical association of the SNPs in many complex diseases. As GWAS results could not thoroughly reveal the genetic background of these disorders, Genome-Wide Interaction Studies have started to gain importance. In recent years, various statistical approaches, such as entropy-based methods, have been suggested for revealing these non-additive interactions between variants. This study presents a novel prioritization workflow integrating two-step Random Forest (RF) modeling and entropy analysis after PLINK filtering. PLINK-RF-RF workflow is followed by an entropy-based 3-way interaction information (3WII) method to capture the hidden patterns resulting from non-linear relationships between genotypes in Late-Onset Alzheimer Disease to discover early and differential diagnosis markers.

Results
Three models from different datasets are developed by integrating PLINK-RF-RF analysis and entropy-based three-way interaction information (3WII) calculation method, which enables the detection of the third-order interactions, which are not primarily considered in epistatic interaction studies. A reduced SNP set is selected for all three datasets by 3WII analysis by PLINK filtering and prioritization of SNP with RF-RF modeling, promising as a model minimization approach. Among SNPs revealed by 3WII, 4 SNPs out of 19 from GenADA, 1 SNP out of 27 from ADNI, and 4 SNPs out of 106 from NCRAD are mapped to genes directly associated with Alzheimer Disease. Additionally, several SNPs are associated with other neurological disorders. Also, the genes the variants mapped to in all datasets are significantly enriched in calcium ion binding, extracellular matrix, external encapsulating structure, and RUNX1 regulates estrogen receptor-mediated transcription pathways. Therefore, these functional pathways are proposed for further examination for a possible LOAD association. Besides, all 3WII variants are proposed as candidate biomarkers for the genotyping-based LOAD diagnosis.

Conclusion
The entropy approach performed in this study reveals the complex genetic interactions that significantly contribute to LOAD risk. We benefited from the entropy-based 3WII as a model minimization step and determined the significant 3-way interactions between the prioritized SNPs by PLINK-RF-RF. This framework is a promising approach for disease association studies, which can also be modified by integrating other machine learning and entropy-based interaction methods.
Stability indicating eco-friendly quantitation of terbutaline and its pro-drug bambuterol using quantitative proton nuclear magnetic spectroscopy
Authors: El-Sayed Asmaa , Sabry Mohamed A. , Elmansi Heba , Eid Manal , Shalan Shereen 
Published: January 2024

AbstractQuantitative 1H-NMR became an increasingly important issue in pharmaceutical analytical chemistry. This study used NMR spectroscopy to assay the bronchodilator drug terbutaline sulfate and its pro-drug bambuterol hydrochloride in pure form and pharmaceutical preparations. The technique proceeded using deuterium oxide (D2O) as an 1H-NMR solvent and phloroglucinol anhydrous as an internal standard (IS). Comparatively, to the phloroglucinol signal at 5.9 ppm, the resulting quantitative signals of the studied drugs were corrected. The terbutaline singlet signal at 6.3 ppm was chosen for quantification, while the bambuterol quantitative singlet signal was at 2.9 ppm. The two drugs were rectilinear over the concentration range of 1.0–16.0 mg/mL. LOD values were 0.19 and 0.21 mg/mL while LOQ values were 0.58 and 0.64 mg/mL for terbutaline and bambuterol respectively. The developed method has been validated according to the International Conference of Harmonization (ICH) regarding linearity, accuracy, precision, specificity, and robustness. A greenness profile assessment was applied, and the method proved to be green. The method enables the assay of the two drugs in pure drug and pharmaceutical preparations. The method also enables the assay of the two drugs in the presence of each other; thus, it is considered a stability-indicating method where terbutaline is an acid degradation product of bambuterol.
CRAFT: a web-integrated cavity prediction tool based on flow transfer algorithm
Authors: Gahlawat Anuj , Singh Anjali , Sandhu Hardeep , Garg Prabha 
Published: January 2024

Abstract
Numerous computational methods, including evolutionary-based, energy-based, and geometrical-based methods, are utilized to identify cavities inside proteins. Cavity information aids protein function annotation, drug design, poly-pharmacology, and allosteric site investigation. This article introduces “flow transfer algorithm” for rapid and effective identification of diverse protein cavities through multidimensional cavity scan. Initially, it identifies delimiter and susceptible tetrahedra to establish boundary regions and provide seed tetrahedra. Seed tetrahedron faces are precisely scanned using the maximum circle radius to transfer seed flow to neighboring tetrahedra. Seed flow continues until terminated by boundaries or forbidden faces, where a face is forbidden if the estimated maximum circle radius is less or equal to the user-defined maximum circle radius. After a seed scanning, tetrahedra involved in the flow are clustered to locate the cavity. The CRAFT web interface integrates this algorithm for protein cavity identification with enhanced user control. It supports proteins with cofactors, hydrogens, and ligands and provides comprehensive features such as 3D visualization, cavity physicochemical properties, percentage contribution graphs, and highlighted residues for each cavity. CRAFT can be accessed through its web interface at http://pitools.niper.ac.in/CRAFT, complemented by the command version available at https://github.com/PGlab-NIPER/CRAFT/.

Scientific contribution
Flow transfer algorithm is a novel geometric approach for accurate and reliable prediction of diverse protein cavities. This algorithm employs a distinct concept involving maximum circle radius within the 3D Delaunay triangulation to address diverse van der Waals radii while existing methods overlook atom specific van der Waals radii or rely on complex weighted geometric techniques.
Unraveling data from an idea management system of 11 radical innovation portfolios: key lessons and avenues for artificial intelligence integration
Authors: Jakobsen Henning Sejer , Brix Jacob , Jakobsen Rune Sejer 
Published: January 2024

AbstractIn strategic and radical innovation, the degree of uncertainty and the amount of complexity is much higher compared to ‘business as usual’. Therefore, idea management systems are often used to support such innovation processes. An interesting question is what we can learn from studying data in such idea management systems and what potential implications we can derive from the innovation management literature. In this study, we were allowed to access and analyze data from the same idea management system used in 11 radical innovation projects from the years 2012–2018. Our analysis unravels 8 findings that in different ways nuance or challenge current research on innovation management. Finally, we discuss how the integration of artificial intelligence (AI) in idea management systems can support innovation team members in increasing the innovation potential of the ideas that are elaborated.
Association between regional critical care capacity and the incidence of invasive mechanical ventilation for coronavirus disease 2019: a population-based cohort study
Authors: Ohbe Hiroyuki , Hashimoto Satoru , Ogura Takayuki , Nishikimi Mitsuaki , Kudo Daisuke , Shime Nobuaki , Kushimoto Shigeki 
Published: January 2024

Abstract
Background
Coronavirus disease 2019 (COVID-19) has exposed critical care supply shortages worldwide. This study aimed to investigate the association between regional critical care capacity and the incidence of invasive mechanical ventilation following novel COVID-19 during the pandemic in Japan, a country with a limited intensive care unit (ICU) bed capacity of a median of 5.1 ICU beds per 100,000 individuals.

Methods
This population-based cohort study used data from the CRoss Icu Searchable Information System database and publicly available databases provided by the Japanese government and Japanese Society of Intensive Care Medicine. We identified patients recently diagnosed with COVID-19, those who received invasive mechanical ventilation, and those who received extracorporeal membrane oxygenation (ECMO) between February 2020 and March 2023. We analyzed the association between regional critical care capacity (ICU beds, high-dependency care unit (HDU) beds, resource-rich ICU beds, and intensivists) and the incidence of invasive mechanical ventilation, ECMO, and risk-adjusted mortality across 47 Japanese prefectures.

Results
Among the approximately 127 million individuals residing in Japan, 33,189,809 were recently diagnosed with COVID-19, with 12,203 and 1,426 COVID-19 patients on invasive mechanical ventilation and ECMO, respectively, during the study period. Prefecture-level linear regression analysis revealed that the addition of ICU beds, resource-rich ICU beds, and intensivists per 100,000 individuals increased the incidence of IMV by 5.37 (95% confidence interval, 1.99–8.76), 7.27 (1.61–12.9), and 13.12 (3.48–22.76), respectively. However, the number of HDU beds per 100,000 individuals was not statistically significantly associated with the incidence of invasive mechanical ventilation. None of the four indicators of regional critical care capacity was statistically significantly associated with the incidence of ECMO and risk-adjusted mortality.

Conclusions
The results of prefecture-level analyses demonstrate that increased numbers of ICU beds, resource-rich ICU beds, and intensivists are associated with the incidence of invasive mechanical ventilation among patients recently diagnosed with COVID-19 during the pandemic. These findings have important implications for healthcare policymakers, aiding in efficiently allocating critical care resources during crises, particularly in regions with limited ICU bed capacities.
Registry and the registration no. of the study/trial The approval date of the registry was August 20, 2020, and the registration no. of the study was lUMIN000041450.
Application of a weighted ensemble forecasting method based on online learning in subseasonal forecast in the South China
Authors: Xin Fei , Shen Yichen , Lu Chuhan 
Published: January 2024

AbstractUnder the proposal of “seamless forecasting”, it has become a key problem for meteorologists to improve the skills of subseasonal forecasts. Since the launch of the subseasonal-to-seasonal (S2S) plan by WMO, the precision of model predictions has been further developed. However, when we are focusing on the practical applications of models in the South China (SC) in recent years, we found that large disagreements appear between forecast members. Some of the members predicted well in this area, while others are not satisfactory. To improve the accuracy of subseasonal forecast in the SC, new methods making full use of different forecast models must be proposed. In this passage, we introduced a weighted ensemble forecasting method based on online learning (OL) to overcome this difficulty. As the state-of-the-art forecast models in the world, three models from China Meteorological Administration, European Centre for Medium-Range Weather Forecasts and National Centers for Environmental Prediction provided by the S2S prediction dataset are used as ensemble members, and an ensemble weight is trained through the aforementioned OL model for the predictions of temperature and precipitation in subseasonal timescale in the SC. The results show that the forecast results produced under the OL method are better than the original model predictions. Compared with the three model ensemble results, the weighted ensemble model has a good ability in depicting the temperature and precipitation in the SC. Furthermore, we also compared this strategy against the climatology predictions and found out that the weighted ensemble model is superior in 10–30 days. Thus, the weighted ensemble method trained thorough OL may shed light on improving the skill of subseasonal forecasts.
Publicly available data sources in sport-related concussion research: a caution for missing data
Authors: Bretzin Abigail C. , D’Alonzo Bernadette A. , van der Mei Elsa R. , Gravel Jason , Wiebe Douglas J. 
Published: January 2024

Abstract
Background
Researchers often use publicly available data sources to describe injuries occurring in professional athletes, developing and testing hypotheses regarding athletic-related injury. It is reasonable to question whether publicly available data sources accurately indicate athletic-related injuries resulting from professional sport participation. We compared sport-related concussion (SRC) clinical incidence using data from publicly available sources to a recent publication reporting SRC using electronic health records (EHR) from the National Football League (NFL). We hypothesize publicly available data sources will underrepresent SRC in the NFL. We obtained SRCs reported from two publicly available data sources (NFL.com, pro-football-reference.com) and data reported from the NFL’s published EHR. We computed SRC per 100 unique player signings from 2015–2019 and compared the clinical incidence from publicly available data sources to EHR rates using clinical incidence ratios (CIR) and 95% confidence intervals (CI).

Findings
From 2015–2019, SRC counts from published EHR record data ranged from 135–192 during the regular season, whereas SRC counts ranged from 102–194 and 69–202 depending on the publicly available data source. In NFL.com the SRC clinical incidence was significantly and progressively lower in 2017 (CIR: 0.73, 95% CI: 0.58–0.91), 2018 (CIR: 0.66, 95% CI: 0.50–0.87), and 2019 (CIR: 0.48, 95% CI: 0.35–0.64) relative to the gold-standard EHR. In the pro-football-reference.com data, the documented SRCs in publicly available data sources for other years were ~ 20–30% lower than the gold-standard EHR numbers (CIRs 0.70–0.81).

Conclusions
Publicly available data for SRCs per 100 unique player signings did not match published data from the NFL’s EHR and in several years were significantly lower. Researchers should use caution before using publicly available data sources for injury research.
Morpho-molecular characterization of two Syrian soil-sourced isolates of Beauveria (Bals.) Vuill.
Authors: Rajab Lobna , Ahmad Mohammad , Gazal Ibtisam 
Published: January 2024

Abstract
Background
The genus Beauveria (Bals.) Vuill. includes many species, some of which are limited to specific regions while others are distributed worldwide. The diversity of Beauveria species is poorly investigated in Syria and most studies lack proper diagnosis of species. Entomopathogenic isolates of this genus were obtained using the Galleria Bait Method. This study aimed to identify these isolates based on morphological characterizations combined with molecular data, using nuclear ribosomal internal transcribed spacer (ITS) and elongation factor 1-alpha (EF1-α) sequences. The diversity of this genus in Syria has also been evaluated using a phylogenetic analysis of available ITS sequences of Syrian isolates in the GenBank.

Results
Two entomopathogenic isolates, B195 and B243, were detected in the soil of agro-ecosystems in the Syrian coastal region. Morphological and molecular information revealed that these two isolates belong to Beauveria bassiana (Bals.) Vuill. (Hypocreales: Cordycipitaceae) with 514 bp and 284 bp for the sequences of each isolate for ITS and EF1-α, respectively. Pathogenicity test showed 100% mortality of Galleria mellonella L. larvae 2–3 days post-fungal exposure for both isolates. The phylogenetic tree showed that all Syrian sequences of Beauveria clustered within the species B. bassiana, with a considerable intraspecific diversity, except for two isolates previously identified as B. bassiana, which are closely related to Beuveria pseudobassiana S.A. Rehner and Humber.

Conclusions
This study presents a morpho-molecular characterization of two Syrian soil-sourced B. bassiana isolates highly pathogenic to G. mellonella larvae and clarifies their phylogenetic placement. Depending on our findings, further exploration studies of the genus Beauveria in Syria are still needed to better our understanding of the diversity and distribution of this entomopathogen in Syria.
Subependymal giant cell astrocytoma as presentation of tuberous sclerosis: a case report
Authors: Jayalakshmy P. S. , Pillai Aswathy Mohanachandran , Rajan Reshmi 
Published: January 2024

Abstract
Background
A case of tuberous sclerosis patient on long-term follow-up is reported here.

Case presentation
A 22-year-old female patient with epilepsy was diagnosed with tuberous sclerosis at the age of 12 years. At that time, a small subependymal giant cell astrocytoma has been detected along with the other signs of the disease. But the patient was not symptomatic of the intracranial lesion at that time. So, she was kept under follow-up with treatment for the epilepsy. Within 10 years, the lesion gradually enlarged and caused symptoms and the tumour had to be resected at the age of 22 years of age.

Conclusions
Subependymal giant cell astrocytoma is very slow-growing low-grade tumour. If small and asymptomatic at the time of the initial diagnosis, resection is not advised. The patient should be kept under close follow-up.
The RAVI registry: prospective, multicenter study of radial access in embolization procedures – 30 days follow up
Authors: Guimaraes Marcelo , Fischman Aaron , Yu Hyeon , Tasse Jordan , Stewart Jessica , Pereira Keith ,   for the RAVI Registry Investigators, Uflacker Andre , Yamada Ricardo , Vaheesan Kirubahara , Malik Ali Abdullah , Sherwani Afsheen , Commander Clayton , Kohi Maureen , Lookstein Robert , Nowakowski Francis , Patel Rahul , Patel Rajesh , Titano Joseph , Ranade Mona 
Published: January 2024

Abstract
Background
There is a lack of registry studies about transradial access (TRA) outcomes. This prospective registry evaluated the TRA and procedure outcomes of visceral embolizations performed via TRA with 30-day follow-up.

Material & methods
Prospective, multicenter registry included uterine fibroids (UFE), prostate artery (PAE), liver tumors (LT), and other hypervascular tumors (OHT) embolization performed in six US hospitals. Between February 2020 and January 2022, 99 patients underwent one radial artery visceral intervention (RAVI); 70 had UFE (70.7%), 16 PAE (16.2%), 7 LT (7.1%), and 6 OHT (6.1%). The mean age was 50.1 (±11.1) years, and 74/99 (74.7%) were females. The primary safety endpoints included hand ischemia, stroke, and death. Procedural success was defined as completing the intended procedure via radial artery (RA) access. Technical success was defined as the successful delivery of HydroPearl™ microspheres and complete embolization of the target vessel.

Results
Procedural and technical successes were 100% and 97%, respectively. There was no stroke, hand ischemia, radial-to-femoral conversion, access-related serious adverse events, or clinically evident radial artery occlusion at 30 days. There were two deaths: one respiratory failure and one progression of liver disease. Minor RA-related adverse event included arterial spasm, hematoma, and post-procedure discomfort.

Conclusion
This prospective, multicenter, open-label registry confirmed the high safety profile and effectiveness of radial access in UFE, PAE, LT, and OHT embolization procedures without stroke, hand ischemia, or access-related serious adverse events at 30-day follow-up.
The effects of anatomical location and distance from dental implants on the quality and quantity of metal artifacts in cone beam computed tomography scans: a cross-sectional study
Authors: Salari Yalda , Sakhdari Shirin , Hafezi Ladan , Bidoki Faeze Zare , Mosaddad Seyed Ali 
Published: January 2024

AbstractBackgroundArtifacts in cone beam computed tomography (CBCT) images can cause disruptions in diagnosis and treatment. Multiple factors influence the artifacts, including the quality and technology of devices, positions, patient-related factors, device settings, and bone density. Besides, anatomical area and distance from the implant affect the artifacts. This study aimed to investigate the effects of anatomical location and distance from the implant on the quality and quantity of artifacts.MethodsA total of 200 CBCT images of patients with titanium implants and prostheses in the anterior and posterior regions of the maxilla and mandible were evaluated in this study. Four areas were assessed for each implant in three apical, middle, and cervical regions with distances of 3 mm, 4 mm, and 5 mm from the implant. Besides, the impact of adjacent implants on the artifacts was investigated. An ANOVA test with post hoc Bonferroni correction was used to analyze variable differences between subgroups.ResultsThe differences were statistically significant, except for the difference between the posterior areas of the upper and lower jaws. A comparison of different areas revealed that most artifacts were related to the anterior maxilla, followed by anterior mandibular regions. The results of covariance analysis indicated that region and location had independent effects on the amount of artifacts.ConclusionsArtifacts are more frequent in the anterior region compared to the posterior site. They are also more frequent in the maxilla than the mandible and cervical areas close to the implant than the middle and apical regions.
Impact of bilingualism on language development in 46 Egyptian children
Authors: Sami Rasha 
Published: January 2024

Abstract
Purpose
Bilingualism is a common practice around the world. It was believed that bilingualism might affect language development. This study aimed to investigate the impact of bilingualism on language development in a group of Egyptian children.

Methods
The study included 46 children 5–6 years of age recruited from a single American international school in Egypt to ensure all subjects have same socio-economic standard and the same environment to exclude other factors that may affect language development other than bilingualism. The 46 students are average students as per their school report; all children started learning English at the age of 3 years. At home, parents speak Arabic all the time and just label a few objects in English language. Socio-economic data were collected through parents’ interviews; there was no history of delayed language development nor speech and language therapy. Two assessment tools were administered: Preschool Language Scales Fifth Edition (PLS-5) to assess English language and Receptive Expressive Arabic Language Scale (REAL Scale) to assess Arabic language development for the study group, and this tool start age is 5 years.

Results
The results of the PLS-5 and REAL Scale indicated normal language development of Arabic and English in all children.

Conclusion
Early English language learning does not affect Arabic language development in the study group. Both languages are well developed in these children, provided they use Arabic as the primary communication language at home with parents and siblings.