bluuebunny/crossref_metadata_2025_split huggingface dataset:
Investigation of genes related to oral cancer using time-to-event machine learning approaches
Authors: Shekari Niusha , Amini Payam , Tapak Leili , Rasouli Mahboobeh 
Published: June 2023

Abstract
Background: Since cancer is one of the most common and deadly diseases, its early diagnosis is very important for treatment and prevents the irreparable physical, mental and social consequences of this disease. Oral cancer is also one of the most common cancers, and factors such as gender, age, and smoking influence the incidence of this disease. One of the most important factors affecting cancer is genetic factors. It is not enough to consider clinical factors for the treatment of this disease, and it is also very important to deal with the genes in people's bodies that are effective in their survival against cancer. Also, the survival of people with oral cancer in the early stages of the disease is 80%, so early detection is very important. Therefore, we are looking for a model to better investigate key and effective genes in this disease.
Methods: A publicly available dataset of oral cancer (GSE26549) including information of 29096 genes expression profiles of 86 samples was used. A univariate cox regression was used for each gene’s expression to reduce the number of genes. Cox-Boost, Random Survival Forest and Support survival SVM (Recursive Feature Elimination) were used to identify related genes. Shared genes between three methods were discovered for calculating the prognostic score and the Kaplan-Meier curve. To do validation, common genes were selected from the validation dataset (GSE9844) to provide the ROC curve.
Results: The univariate Cox regression models selected 945 significant genes. Four shared genes of RPL24, HTR3B, ASAH2B and TEX29 related to time-to-death in oral cancer patients were then identified by using the Cox-Boost, Random Survival Forest and Support survival SVM (Recursive Feature Elimination). The survival distributions of the high-risk and low-risk groups significantly differed.
Conclusion: Common genes between three methods were RPL24, HTR3B, ASAH2B and TEX29 which all of them were significant in multiple Cox.
A novel evaluation system for arthrokinematic ankle motion using a rotary encoder
Authors: Ito Hiroki , Kodama Takayuki , Yamaguchi Hideaki 
Published: June 2023

Abstract
Ankle joint control is considered important for walking. The relationship between the kinematic indices and neurophysiological indices that reflect neuromuscular control of the lower extremity by upper motor centres must be evaluated to capture the essence of ankle joint control and construct rehabilitation. Herein, we developed the articulation motion assessments system (AMAS) to measure both these indices synchronously. The aim of this study was to validate the validity and reliability of the AMAS’ ankle kinematics analysis. This study included 14 heathy adults. AMAS, a reflective marker and inertial sensor was attached to their right foot, and they performed different ankle joint tasks, such as dorsiflexion, plantarflexion, inversion, and eversion with subjective maximum and mild angular movements. Each task was performed randomly under two conditions; comfortable and slow speeds. Two-dimensional motion analysis and the AMAS had moderate-to-high correlation. The mean root mean square error (RMSE) was significantly lower than those of inertial sensor. The repeatability of the AMAS was better than 0.76 for intraclass correlation coefficients (3,1) and (3,k). However, the Bland-Altman analysis showed fixed errors. Errors should be considered when comparing measurement methods. Synchronised kinematic and neurophysiological measurements should elucidate ankle joint control mechanisms and improve rehabilitation.
Incidence of Acute Kidney Injury and its predictors among neonates admitted at neonatal intensive care unit, university of Gondar, Debretabor and Tibebe Ghion Amhara Region Comprehensive Specialized Hospitals, Northwest Ethiopia, 2023
Authors: Demsu Gezahagn , Gebru Abere , Tadesse Asnake , Tazeb Wubet , Abebe Zenebe , Asres Rahel , Moges Astewil , Berie Gebrehiwot , Getaneh Tewdros , Melak Tsehayu , Seman Yaregal , Tamir Menyichil , Tefera Almaz , Belege fekadeselassie , Sewunet Habtamu , Tesfaye Dawit , Tesfaye Bruck 
Published: June 2023

Abstract

Background: Although acute kidney injury is a major cause of neonatal morbidity and mortality worldwide, it is a serious problem in low and middle-income countries, particularly in sub-Saharan Africa such as Ethiopia. Moreover, there are few studies in developing countries. However, the aim of this study was to investigate the incidence and predictors of acute kidney injury in neonates admitted to the neonatal intensive care unit of some specialized hospitals in the Amhara region of northwestern Ethiopia.
Methods: A facility-based retrospective follow-up study was conducted with 634 neonates from January 2020 to December 2022. Data were collected by reviewing patient charts using simple random sampling with a pretested checklist, entered using Epi-data 4.6, and analyzed using STATA 14. Median survival time, Kaplan-Meier survival curve, and log-rank test were calculated. Bivariable and multivariable Cox hazard models were used to determine the determinants of acute kidney injury. A hazard ratio with a 95% confidence interval was calculated. Variables with p-values less than 0.05 were considered statistically significant.
Results: The proportion of acute kidney injury among neonates admitted to the three selected specialized neonatal intensive care units was (20.19%) (95% CI: 17.23-23.50) with an incidence of 14.9 per 1000 (95%CI: 12.5-17.7) neonates with sepsis (AHR: 2.59; 95%CI: 1.21-5.56), neonates with perinatal asphyxia [(AHR: 2.70; 95%CI: 1.29-5.65) were taking gentamicin drugs [(AHR=1.74; 95%CI: 1.03-2.94], were preterm [(AHR; 1.77: 95%CI: 1.05 -2.98], hyponatremia [(AHR: 2.14; 95%CI: (1.00 -4.9)] and hyperkalemia [(AHR: 2.64; 95 CI: (1.11- 6.2)] were found to be significant predictors of acute kidney injury.
Conclusions: The incidence of acute kidney injury in neonates was high. Premature infants, neonates with sepsis, who suffered perinatal asphyxia, took gentamicin drugs, whose sodium levels decreased and potassium levels increased were at higher risk of developing acute kidney injury. All concerned agencies should work to prevent acute kidney injury and pay special attention to multifactorial causes. Therefore, strategies need to be developed and/or strengthened to prevent the occurrence of acute kidney injury in infants with sepsis, neonates who suffered perinatal asphyxia, and preterm infants whose sodium levels decreased and potassium levels increased.
A primate-specific (CCG) repeat in DISP2 is subject to natural selection in human and harbors divergent genotypes in late-onset neurocognitive disorder.
Authors: Khamse Safoura , Alizadeh Samira , Khorshid Hamid R. Khorram , Delbari Ahmad , Tajeddin Nahid , Ohadi Mina 
Published: June 2023

Abstract
(CCG)-repeats are predominantly enriched in genic regions, mutation hotspots for C to T truncating substitutions, and involved in various neurological and neurodevelopmental disorders. However, intact blocks of this class of STRs are widely overlooked with respect to their link with natural selection. The human DISP2 (dispatched RND transporter family member 2) has the highest level of expression in the brain, and contains a (CCG)-repeat, which is in the top 1 percent of STRs with respect to length. Here we sequenced this STR in a sample of 448 Iranian individuals, consisting of late-onset neurocognitive disorder (NCD) (N = 203) and controls (N = 245). The region spanning the (CCG)-repeat was highly mutated, resulting in several CCG residues. However, an 8-repeat of the (CCG)-repeat was predominantly abundant (frequency = 0.92) across the two groups. While the overall distribution of genotypes was not different between the two groups (p > 0.05), we detected four genotypes in the NCD group only (2% of the NCD genotypes, Mid-p = 0.02), consisting of allele lengths that were not detected in the control group. The patients harboring those genotypes received the diagnoses of probable Alzheimer’s disease and vascular dementia. We also found six genotypes in the control group only (2.5% of the control genotypes, Mid p = 0.01). We report a potential novel locus for late-onset NCD and indication of natural selection at this locus in human. These findings reinforce the hypothesis that a collection of rare alleles and genotypes in a number of genes may contribute to a divergent genotype compartment in the pathogenesis of late-onset NCD.
Research on deformation homogeneity control of thin-walled conical aeroengine forgings based on GA-SVR
Authors: Han Yan , Wang Menghan , Du MengLong , Guo Tao 
Published: June 2023

Abstract
The performance and service life of aero-engine forgings, vital components of aero-engines, are profoundly impacted by their forming quality, which is substantially influenced by deformation uniformity. This study aims to control the deformation uniformity of thin-walled conical aero-engine forgings through preform design. Initially, the DEFORM DOE module and MATLAB are utilized to simulate various scenarios, automatically acquiring samples with preform die geometry parameters as variables. Subsequently, a deformation uniformity prediction model is constructed by integrating genetic algorithm (GA) and support vector regression (SVR). The fitness function of the genetic algorithm is defined as the mean squared error (MSE) between the predicted values of the SVR model and the finite element simulation values, iteratively optimizing the SVR model. The results reveal that the established prediction model, based on limited sample data, achieves high accuracy and efficiency, significantly diminishing the frequency of trial-and-error simulations while enhancing the efficiency of preform design for thin-walled conical forgings. Finite element simulation outcomes and macro/microstructure test results following trial production further validate the deformation uniformity prediction model's exceptional accuracy.
Viperin inhibits interferon-γ production to promote Mycobacteria tuberculosis infection by disrupting TBK1-IKKε-IRF3-axis and JAK-STAT signaling
Authors: Liang Yao , Liang Yun , Wang Qi , Li Qianna , Huang Yingqi , Li Rong , Pan Xiaoxin , Lie Linmiao , Xu Hui , Han Zhenyu , Liu Honglin , Wen Qian , Zhou Chaoying , Ma Li , Zhou Xinying , Zhao Xingqi 
Published: June 2023

Abstract
As an interferon-inducible protein, Viperin has demonstrated the advantages of a broad-spectrum antiviral effects and regulation of host immune responses. However, how Viperin regulates interferon-γ (IFN-γ) production in macrophages to control Mycobacterium tuberculosis (Mtb) infection remain undefined. Here, we demonstrated that Viperin inhibited IFN-γ production in macrophages and in lungs of mice to promote Mtb infection. Further insight into the mechanism of Viperin mediated regulation of IFN-γ production revealed the role of TANK-binding kinase 1 (TBK1), the TAK1-dependent inhibition of NF-kappa B kinase-epsilon (IKKε) and interferon regulatory factor 3 (IRF3). Inhibition of TBK1-IKKε-IRF3 axis restored the IFN-γ production reduced by Viperin knockout in bone marrow derived macrophage (BMDM) and suppressed Mtb infection. Moreover, Viperin deficiency activated the Janus kinase (JAK)-signal transducer and activator of transcription (STAT) signaling pathway, which promoted IFN-γ production and inhibited Mtb infection in BMDM. In addition, a combination of the anti-TB drug INH treatment in the absence of Viperin resulted in further activation of TBK1-IKKε-IRF3 axis and JAK1, and led to further IFN-γ production and anti-TB effect in BMDM. This study highlights the involvement of TBK1-IKKε-IRF3 axis and JAK-STAT signaling pathway in Viperin-suppressed IFN-γ production in Mtb infected macrophages, and identifies a novel mechanism of Viperin on negatively regulating host immune response to Mtb infection. Thus, we propose Viperin as a candidate target for host-directed therapy (HDT) for TB treatment.
Venetoclax combined with hypomethylating agents and the CAG regimen (DCAG) in relapsed/refractory AML: A single- center clinical trial
Authors: Liu Yifan , Li Yanfen , Zhang Ran , Yu Zhangyu , Jing Yu 
Published: June 2023

Abstract
Purpose
Relapsed/refractory acute myeloid leukemia (R/R AML) has a low remission rate and poor prognosis, and the current therapeutic measures are limited and low in effectiveness. This clinical study investigated the efficacy and safety of the Bcl-2 inhibitor venetoclax (VEN) used in combination with the DCAG regimen (decitabine/azacytidine, cytarabine, aclarubicin, and granulocyte colony-stimulating factor) in the treatment of R/R AML.
Methods
We analyzed the clinical data of R/R AML patients who received the VEN-DCAG regimen at the First Medical Center of the PLA General Hospital from 3/2021 to 1/2023. Postmedication responses were observed and analyzed, including CR/CRi (complete remission/complete remission with incomplete hematological recovery) rate, measurable residual disease (MRD) negative rate (patients achieving CR/CRi), overall survival (OS), event-free survival (EFS), and success rate of subsequent bridging allogeneic hematopoietic stem cell transplant (allo-HSCT).
Results
Twenty patients treated with VEN + DCAG for R/R AML were included. The median age was 40 (10–70) years, 11 (55%) were male and 9 (45%) were female. The ORR was 90% (18/20) after the 1st cycle of treatment, with 17 (85%) CR/CRi (10 MRD negative) patients, 1 (5%) PR, and 2 (10%) NR patients. Twelve patients (7 MRD- CR, 4 MRD + CR, 1 NR) were treated with the subsequent VEN-DCAG regimen, 3 cases MRD turned negative (1 course of MRD + CR), 1 NR patient died of disease progression after receiving the subsequent VEN-DCAG, and 13 patients eventually achieved MRD- CR (76.5%). Among them, there were 7 patients in the relapse group, 7 with CR/CRi and 6 with MRD-negative CR (85.7%); there were 13 patients in the refractory group, 10 with CR/Cri and 7 with MRD-negative CR (70%). The treatment response rates were 100% (7/7) and 84.6% (11/13) for patients in the relapse and refractory groups, respectively. All patients experienced varying degrees of adverse events (AEs), with hematologic AEs (mainly myelosuppression) and nonhematologic AEs (with fever, gastrointestinal discomfort and infection being more common). At the last follow-up, 1 (MRD + CR) of 11 patients (7 MRD- CR, 4 MRD + CR) who received allo-HSCT died; 5 (2 MRD- CR, 1 PR, 2 NR) of 9 patients (6 MRD- CR, 1 PR, 2 NR) who were not treated with allo-HSCT died. The median follow-up time was 12.7 (2.6–21.8) months for the 14 surviving patients. The median OS was 4.35 (0.7–18.1) months for the 6 patients who died.
CONCLUSION
VEN-DCAG is an effective treatment regimen for R/R AML patients, with high rates of complete remission and good tolerability in both relapsed and refractory AML patients. The rate of MRD-negative CR can be further improved by increasing the number of courses of treatment in patients with MRD-positive CR. Allo-HSCT should be bridged as soon as possible after achieving CR by VEN-DCAG, which can significantly improve patient survival.
An optimized method for calibration milling force coefficients and cutter run-out parameters in end milling process
Authors: Li Fei , Liu Jun , Hu Baoquan , Jin Honghong 
Published: June 2023

Abstract

Accurate calibration milling force coefficients is essential for predicting milling forces and characterizing the milling state. Cutter run-out is an unavoidable phenomenon in end milling process, which affects the working state of the cutter and the machining accuracy of the work-piece. In this paper, an optimized method based on average force method is proposed to calibrate milling force coefficients and cutter run-out parameters in the end milling process. The whole calibration procedure is divided into three steps. Firstly, the average force method is used to preliminarily calibrate the milling force coefficients. Then, further optimization is carried out based on the coefficients calibrated by the average force method, average milling force equations are used and a calibration procedure is presented by defining an objective function which is utilized to limit the average forces error ratios between the calculated results and the measured results. Finally, the milling force coefficients obtained in the second step are used to calibrate the cutter run-out parameters, the instantaneous milling force equations are used and a calibration procedure is also presented by defining a new objective function with the minimum sum of squared errors between the instantaneous prediction results and the instantaneous measurement results. Compared with the average milling forces and the instantaneous milling force curves measured by experiments, the mean force error ratios of the presented method are much smaller than the average force method and the milling force curves simulated by the proposed method are more consistent.
Escape behaviors in prey and the evolution of pennaceous plumage in dinosaurs
Authors: Park Jinseok , Son Minyoung , Park Jeongyeol , Bang Sang Yun , Ha Jungmoon , Moon Hyungpil , Lee Yuong-Nam , Lee Sang-im , Piotr G. Jablonski 
Published: June 2023

Abstract
Numerous non-avian dinosaurs possessed pennaceous feathers on their forelimbs (proto-wings) and tail (caudal plumage). Their functions remain unclear. We propose that the pennaceous feathers were used in displays to flush prey through stimulation of sensory-neural escape pathways in prey, and to provide higher speed and maneuverability during pursuits after prey. We evaluated escape behavior of grasshoppers to the hypothetical visual flush-displays by a robotic dinosaur, and neurophysiological responses of grasshoppers’ escape pathway to computer animations of the hypothetical flush-displays by dinosaurs. We confirmed that prey of small dinosaurs might have escaped more often when proto-wings were present, especially distally and with contrasting patterns, and when caudal plumage, especially of large area, was used during the hypothetical flush-displays. The reinforcing loop between flush and pursue functions could have contributed to the evolution of larger and stiffer feathers for faster running, maneuverability, and stronger flush-displays, promoting foraging based on the flush-pursue strategy. The flush-pursue hypothesis can explain the presence and distribution of the pennaceous feathers, plumage color contrasts, as well as a number of other features observed in early pennaraptorans. This scenario highlights that sensory-neural processes underlying prey’s antipredatory reactions may contribute to the origin of major evolutionary innovations in predators.
Chromatin Regulators as Prognostic Biomarkers In Patients With Pheochromocytomas And Paragangliomas
Authors: Kong Linlin , Tang Shaofang , Wang Jiao , Ma Tianshuai , Wang Xinyuan , Wu Keyang , Ding Li , Liu Ming , He Qing 
Published: June 2023

Abstract
Chromatin regulators participated in tumorigenesis of various cancers while less research about its relationships with pheochromocytomas and paragangliomas. The aim of our study was to discover potential chromatin regulators as biomarkers for pathogenesis as well as prognosis of pheochromocytomas and paragangliomas. In this study, we explored expression patterns of pheochromocytomas and paragangliomas from the Gene Expression Omnibus database and 870 manually curated verified chromatin regulators. Then 185 differentially expressed chromatin regulators were verified which biological function were explored using Gene Ontology，Disease Ontology，Moreover, Kyoto Encyclopedia of Genes and Genomes pathways enrichment analysis. Besides protein-protein interaction network indicated 10 Hub genes. Their diagnostic performance as well as related drugs were valued by Receiver Operating Characteristics analysis, The Drug Signature Databases separately. Then we use TISIDB database to verify the relationship between 10 Hub genes and immune infiltration of pheochromocytomas and paragangliomas. Finally, 2 key genes were screened after Kaplan-Meier survival analysis and miRNA regulatory network was constructed based on Key genes by TargetScan microRNA 2017 in the Enrichr platform and TargetScanHuman (version8.0) platform. In conclusion, we identified 10 chromatin regulatorsespecially EZH2 and TAF7 which had high diagnostic performance and their functions were complicated in tumorigenesis of pheochromocytomas and paragangliomas. Likewise, the immune infiltration of pheochromocytomas and paragangliomas was intrinsically complex and these Hub genes mainly had negative correlation with immune infiltrating cells as well as immune infiltrating functions. Consequently, these chromatin regulators verified in our research could help to a further evaluation in pathogenesis and prognosis of pheochromocytomas and paragangliomas.
Trial registration
None
AI and data driven media analysis of TV content for optimised digital content marketing
Authors: Nixon Lyndon , Apostolidis Konstantinos , Apostolidis Evlampios , Galanopoulos Damianos , Mezaris Vasileios , Philipp Basil , Bocyte Rasa 
Published: June 2023

Abstract
In order to optimise digital content marketing for broadcasters, the Horizon 2020 funded ReTV project developed an end-to-end process termed "Trans Vector Publishing'' and made it accessible through a Web based tool termed "Content Wizard''. This paper presents this tool with a focus on each of the innovations in data and AI-driven media analysis to address each key step in the digital content marketing workflow: topic selection, content search and video summarization. Firstly, we use predictive analytics over online data to identify topics the target audience will give most attention to at a future time. Secondly, we use neural networks and embeddings to find the video asset closest in content to the identified topic. Thirdly, we use a GAN to create an optimally summarized form of that video for publication, e.g. on social networks. The result is a new and innovative digital content marketing workflow which meets the needs of media organisations in this age of interactive online media where content is transient, malleable and ubiquitous.