bluuebunny/crossref_metadata_2025_split huggingface dataset:
A Biochemomechanical Model of Collagen Turnover in Arterial Adaptations to Hemodynamic Loading
Authors: Tilahun Hailu G. , Mullagura Haritha N. , Humphrey Jay D. , Baek Seungik 
Published: February 2023

Abstract
The production, removal, and remodeling of fibrillar collagen is fundamental to arterial homeostasis, including dynamic morphological and microstructural changes that occur in response to sustained changes in blood flow and pressure under physiological conditions. These dynamic processes involve complex, coupled biological, chemical, and mechanical mechanisms that are not completely understood. Nevertheless, recent simulations using constrained mixture models with phenomenologically motivated constitutive relations have demonstrated a capability to predict salient features of the progression of certain vascular adaptations and disease processes. Collagen turnover is modeled, in part, via stress-dependent changes in collagen half-life, typically taken within the range of 10–70 days. By contrast, in this work we introduce a biochemomechanical approach to model the cellular synthesis of procollagen as well as its transition from an intermediate state of assembled microfibrils to mature cross-linked fibers, with mechano-regulated removal. The resulting model can simulate temporal changes in geometry, composition, and stress during early vascular adaptation (weeks to months) for modest changes in blood flow or pressure. It is shown that these simulations capture salient features from data presented in the literature from different animal models.
Next-Generation sequencing genomic landscape of Chinese thyroid tumors
Authors: Chen Xu-Feng , Yu Peng-Cheng , Ye Wei-Dong , Han Pei-Zheng , Wang Yu-Long 
Published: February 2023

Abstract
Objective: Clinical practice can benefit greatly from the use of next-generation sequencing to identify gene alterations in thyroid cancer. Our study aimed to clarify the thyroid cancer’s gene alterations of Chinese.
Methods: We retrospectively collected next-generation sequencing (NGS) data and clinicopathological features of 2844 cases of thyroid samples. The association between gene alterations and clinicopathological features were analyzed.
Results: BRAF (71%), RAS (4%), TERT (3%), TP53 (1.4%), RET (2.2%), RET/PTC (3.3%), and other gene alterations were detected. For Fine-needle autopsy samples, combined with cytology and NGS, the sensitivity of diagnosis was significantly increased from 0.76 to 0.91, while the specificity was significantly decreased, which temporarily failed to explain the authenticity of the diagnostic experiment. BRAF mutation-positive PTC patients have lower recurrence rate, vascular invasion and tumor size, higher age and tumor multiformity. TERT mutation-positive patients have higher age, recurrence rate, tumor size, tumor invasiveness, and TNM stage, indicating a poor prognosis. And the frequency of TERT Prompter co-mutation with BRAF or RAS is high.
Conclusions:
We provide a large-scale NGS landscape to detect the genomic alteration of Chinese thyroid tumors. A total of 2844 cases with effective gene detection reports were counted. The common gene mutation types are BRAF (71%), RAS (4%), TERT (3%), TP53 (1.4%), RET (2.2%), RET/PTC (3.3%). BRAF mutation is an excellent molecular change for assisting in the diagnosis of PTC and no clear correlation between BRAF V600E and the prognosis of PTC patients. TERT promoter mutation may be a late molecular event of the tumor, promoting the malignant transformation of the tumor together with the early molecular event of the induced tumor.
Variational Temporal Deconfounder for Individualized Treatment Effect Estimation with Longitudinal Observational Data
Authors: Feng Zheng , Prosperi Mattia , Guo Yi , Bian Jiang 
Published: February 2023

Abstract
Purpose
This paper proposes a new approach, Variational Temporal Deconfounder (VTD), for estimating individualized treatment effects (ITE) from longitudinal observational data, where we address the hidden confounding issues by using proxies (i.e., surrogate variables that serve for unobservable variables).
Methods
We build VTD by incorporating a variational recurrent autoencoder that learns the latent encodings of hidden confounders from observed proxies and an ITE estimation network that takes the learned hidden encodings to predict the probability of receiving treatments and potential outcomes.
Results
We test VTD on both synthetic and real-world clinical data, and the results from synthetic data experiments demonstrate VTD's effectiveness in deconfounding by outperforming existing methods, while results from two real-world datasets (i.e., Medical Information Mart for Intensive Care version III [MIMIC-III] and the National Alzheimer’s Coordinating Center [NACC] database) suggest that the performance of the VTD model outperforms existing baseline models, however, varies depending on the assumptions of underlying causal structures and availability of proxies for hidden confounders.
Conclusion
The VTD offers a unique solution to address the confounding bias without the "unconfoundedness" assumption when estimating the ITE from longitudinal observational data. The elimination of the requirement for the "unconfoundedness" assumption makes the VTD more versatile and practical in real-world clinical applications of personalized medicine.
A Differential Diagnostic Model for Moyamoya Disease and Non- moyamoya Ischemic Stroke: A Highly Efficient Clinical Approach
Authors: Teng Yongshi , Dai Shuhua , Liu Huiqin , Jiang Yushu , Qin Lingzhi , Wang Xiaojuan , zhang Milan , He Qian , Xu Jiajia , Xue Hongfei , li wei 
Published: February 2023

Abstract
Purpose: Many moyamoya disease (MMD) ischemic strokes were misdiagnosed and could not be treated effectively. To address this question, we aimed to screen easily obtainable clinical variables to construct a differential diagnostic model between MMD and non-MMD ischemic stroke.
Methods: A total of 300 patients (150 MMD and 150 non-MMD ischemic strokes) in Henan Provincial People's Hospital were selected and divided into training (210) and validation cohorts (90). Binary logistic regression analysis, lasso regression, and support vector machine (SVM) were used to construct the diagnostic model. The optimal model was visualized by nomograms, and the discriminant ability of the nomogram was tested in the training and validation cohorts, respectively.
Results: Among the three models, binary logistic regression has the most significant C statistic (0.87 and 0.88) in the training cohort and validation cohort, respectively. The variables that showed a significant difference in the multivariate logistic regression analysis were systolic blood pressure (SBP), total cholesterol (TC), albumin (ALB), free triiodothyronine (FT3), homocysteine (HCY), and age. The Hosmer-Lemeshow test P values of nomograms in the training and validation cohorts were 0.28 and 0.19, respectively, and the calibration curves were well corrected. Patients with nomogram scores below or above 168 were considered to have a low or high risk of ischemic stroke in MMD, respectively.
Conclusion:Using nomograms to identify MMD and non-MMD ischemic stroke, the model has been validated to have a good discriminatory ability in both the training and validation cohorts, improving clinicians’ awareness of MMD ischemic stroke.
Influence of anti-coagulant therapy in the first trimester uterine flow indices
Authors: Souka Athena , Tasias Konstantinos , Asimakopoulos George , Pilalis Athanasios 
Published: February 2023

Abstract
Purpose: to explore the impact of anticoagulants (aspirin and/or low molecular weight heparin (LMWH)) in the uterine artery flow at 11-13 weeks of gestation.
Materials and Methods: retrospective study on singleton viable pregnancies presenting for routine 11-13 weeks’ ultrasound scan. Maternal and fetal variables were assessed as to their influence on uterine artery pulsatility index (UtA-PI).
Results: 5,606 pregnancies were analyzed. Increasingmaternal age, higher BMI, large fibroids and higher PAPP-A levels were associated with lower Ut-A PI, whereas history of pre-eclampsia/hypertension in a previous pregnancy, smoking and increased fetal ductus venosus PI were associated with higher Ut-A PI levels. The strongest effect was exerted by history of PET/hypertension, maternal PAPP-A MoM and fetal ductus venosus PI. Anticoagulant treatment had no significant influence.
Conclusion: prior treatment with aspirin and/or LMWH does not alter the Ut-A PI. Screening models for pre-eclampsia can be used in women receiving anti-coagulant therapy.
Ex vivo RSA and Pfkelch13 targeted-amplicon deep sequencing reveal parasites susceptibility to artemisinin in Senegal, 2017
Authors: Yade Mamadou Samb , Dièye Baba , Coppée Romain , Mbaye Aminata , Diallo Mamadou Alpha , Diongue Khadim , Bailly Justine , Mama Atikatou , Fall Awa , Thiaw Alphonse Birane , Ndiaye Ibrahima Mbaye , Ndiaye Tolla , Gaye Amy , Tine Abdoulaye , Diédhiou Younouss , Mbaye Amadou Mactar , Doderer-Lang Cécile , Garba Mamane Nassirou , Bei Amy Kristine , Ménard Didier , Ndiaye Daouda 
Published: February 2023

Abstract
Introduction.
Malaria control is highly dependent on the effectiveness of artemisinin-based combination therapies (ACTs), the current frontline malaria curative treatments. Unfortunately, the emergence and spread of parasites resistant to artemisinin (ART) derivatives in Southeast Asia and South America, and more recently in Rwanda and Uganda (East Africa), compromise their long-term use in Sub-Saharan Africa where most malaria deaths occur.
Methods.
Here, we evaluated ex vivo susceptibility to dihydroartemisinin (DHA) from 38 P. falciparum isolates collected in 2017 in Thiès (Senegal) expressed with the Ring-stage Survival Assay (RSA). We explored major and minor variants in the full Pfkelch13 gene, the main determinant of ART resistance using a targeted-amplicon deep sequencing (TADS) approach.
Results.
All samples tested in the ex vivo RSA were found to be susceptible to DHA. Both non-synonymous mutations K189T and K248R were observed each in one isolate, as major (99%) or minor (5%) variants, respectively.
Conclusion.
Altogether, investigations combining ex vivo RSA and TADS are a useful approach for monitoring ART resistance in Africa.
The impact of Akkermansia muciniphila and its Extracellular Vesicles in the regulation of Serotonergic Gene Expression in a small intestine of mice “Probiotics and Antimicrobial Proteins”
Authors: Yaghoubfar Rezvan , BanadKoki Ehsan Zare , Ashrafian Fatemeh , Shahryari Arefeh , Kariman Arian , Davari Mehdi , Fateh Abolfazl , Khatami Shohreh , Siadat Seyed Davar 
Published: February 2023

Abstract
A better understanding of host-microbe interaction as a cross-talk between the gastrointestinal (GI) tract and the gut microbiota by improving the maintenance of GI homeostasis can help treat and prevent GI disorders. Gut microbiota can affect signaling molecules like serotonin, which regulate endocrine systems through the GI tract. While studying the importance of gut microbiota effects in the small intestine is also pivotal in humans' GI health. Here, we investigated the potential role of Akkermansia muciniphila as a next-generation probiotic and its Extracellular Vesicles (EVs) as a post-biotic in regulating the serotonin-related gene system in the duodenum and ileum of the small intestine of mice. A. muciniphila significantly affected the mRNA expression of genes involved in the serotonin system (Tph1, Slc6a4a, Mao, Htr3B, Htr4, and Htr7) in the duodenum and ileum of mice (P < 0.05). Moreover, A. muciniphila-derived EVs could impact the expression of major genes involved in the serotonin system (Tph1, slc6a4a, Mao, Htr3B, Htr4, and Htr7) in the duodenum and ileum of mice (P < 0.05). This study may pave the way for further investigation of the effects of strain-specific probiotics on the serotonergic system, which is currently in its infancy.
Object Identification from Haze Images using Optimal Adaptive Technique for Light and Dark View
Authors: Pandian Buvanesh , Prasath T. Arun , Rajasekaran M. Pallikonda , Vishnuvarthanan G. 
Published: February 2023

Abstract
Images taken in foggy weather frequently have poor visibility. We suggest an effective regularisation technique in this paper to get rid of hazes from an image. An investigation of the transmission function's built-in boundary constraint is very beneficial to our strategy. This restriction is modelled into an optimization problem to estimate the unknown scene transmission. Additionally, a very effective variable splitting-based approach is described to address the issue by transmission refining techniques. The suggested method can restore a high-quality, haze-free image with authentic colours and fine image details with only a few broad assumptions. The usefulness and efficiency of the suggested strategy are demonstrated by experimental results on a range of hazy photographs. Then from the result, five different image quality parameters are identified for both dark and light view to show the quality of the images.
Stathmin regulates the proliferation and differentiation of inflammatory hDPSCs through canonical Wnt/β-catenin pathway
Authors: Zhang Xiaoyi , Luo Xinghong , Ma Dandan , Hao Chunbo 
Published: February 2023

AbstractObjective Dental pulp stem cells (DPSCs) proliferation and differentiation functions are the basis of pulp injury repair; however, the mechanism of DPSCs functional changes in inflammatory pulp injury is unclear. This study aimed to clarify the regulatory role and mechanism of stathmin protein in inflammatory DPSCs. Study design: Differentially expressed genes between inflamed and healthy dental pulp were first analyzed using Gene Ontology (GO) enrichment. Next, human DPSCs were extracted and cultured in a differentiation medium with lipopolysaccharide (LPS). Stathmin was knocked down in LPS-DPSCs using lentivirus, and the Wnt/β-catenin activator LiCl was added. Stathmin- and LiCl-induced LPS-DPSCs and control cells were stained for alkaline phosphatase (ALP), alizarin red, and neuronal differentiation markers to observe mineralization and neuronal differentiation. Results Inflamed pulp revealed significantly lower expression of genes associated with cell proliferation, mineralization, and neuronal differentiation than healthy pulp. In stathmin knockout LPS-DPSCs, the expression levels of osteogenic-related genes were significantly reduced, and the neuronal differentiation capacity marker was decreased. Typical Wnt signaling has been studied in stathmin-deficient DPSCs. In contrast, the trend of osteogenic and neuronal differentiation of the cells rebounded significantly after adding LiCl, and the in vivo results also demonstrated the involvement of stathmin and LiCl in restorative dentin formation after pulp injury. Conclusions Our results depict that stathmin regulates the proliferation and differentiation of BMSCs while regulating cellular functions through the typical Wnt/β-catenin pathway, which provides new insights into the functional regulation of DPSCs.
Contribution of electric self-forces to electromagnetic momentum in a moving system
Authors: Singal Ashok K. 
Published: February 2023

Abstract
In moving electromagnetic systems, electromagnetic momentum calculated from the vector potential is shown to be proportional to the field energy of the system. The momentum thus obtained is shown actually to be the same as derived from a Lorentz transformation of the rest-frame electromagnetic energy of the system, assuming electromagnetic energy-momentum to be a 4-vector. The energy-momentum densities of electromagnetic fields form, however, components of the electromagnetic stress-energy tensor, and their transformations from rest frame to another frame involve additional contributions from stress terms in the Maxwell stress tensor which do not get represented in the momentum calculated from the vector potential. The genesis of these additional contributions, arising from stress in the electromagnetic fields, can be traced, from a physical perspective, to electric self-forces contributing to the electromagnetic momentum of moving systems that might not always be very obvious. Such subtle contributions to the electromagnetic momentum from stress in electromagnetic fields that could be significant even for non-relativistic motion of the system, lead in fact, to resolution of some curious riddles in the electromagnetic momentum of such systems, e.g., the apparent paradox of a nil electromagnetic momentum in a charged parallel-plate capacitor, moving perpendicular to the plate orientations, in spite of the moving system carrying finite electromagnetic energy within it. Such contributions from stress in electromagnetic fields also provide a natural solution to the famous, century-old, enigmatic factor of 4/3, encountered in the electromagnetic momentum of a moving charged sphere.
Non-Stationary Large-Scale Statistics of Precipitation Extremes in Central Europe
Authors: Fauer Felix S. , Rust Henning W. 
Published: February 2023

Abstract
Extreme precipitation shows non-stationary behavior over time and is dependent on large-scale variables. For a classical frequency-intensity analysis this effect is often neglected. Here, we propose a model including the influence of North Atlantic Oscillation, time, surface temperature and a blocking index. The model features flexibility to use annual maxima as well as seasonal maxima to be fitted in a generalized extreme value setting. To further increase the efficiency of data usage, maxima from different accumulation durations are aggregated so that information for extremes on different time scales can be provided. Our model is trained to individual station data with temporal resolutions ranging from one minute to one day across Germany. Models are chosen with a stepwise BIC model selection and verified with a cross-validated quantile skill index. The verification shows that the new model performs better than a reference model without large-scale information. Also, the new model enables insights into the effect of large-scale variables on extreme precipitation. Results suggest that the probability of extreme precipitation increases with time since 1950 in all seasons. High probabilities of extremes are positively correlated with blocking situations in summer and with temperature in winter. However, they are negatively correlated with blocking situations in winter and temperature in summer.
The effect of lipid metabolism disorder on the immune microenvironment in Xinjiang patients with hyperuricemia using Multi-Omics analysis
Authors: Ma Lili , Wang Jing , Ma Li , Ge Yan , Wang XianMing 
Published: February 2023

Abstract
Objectives The characteristics of lipid metabolism and key pathway regulatory factors in Xinjiang hyperuricemia patients were analyzed by multiomics to observe the influence of lipid metabolism disorder on the immune microenvironment in Xinjiang patients with hyperuricemia. Methods Serum samples were collected from 60 hyperuricemia patients (case group) and 60 normal people (control group). We analyzed the differential lipid metabolites and enrichment pathways in two groups by using high-performance liquid chromatography (HPLC) and liquid chromatography-mass spectrometry (LC-MS). We measured the levels of immune factors CPT1, SEP1, IL-6, IL-10, TNF-α, TGF-β1, Glu, and LD by an enzyme-linked immunosorbent assay (ELISA) and verified dysregulation of lipid metabolism in hyperuricemia. Results The results demonstrated that the 33 differential lipid metabolites were significantly upregulated in hyperuricemia patients. These lipid metabolites are involved in five metabolic pathways, including glycerophospholipid metabolism, linoleic acid metabolism, alpha-Linolenic acid metabolism, glycosylphosphatidylinositol (GPI)-anchor biosynthesis, and Arachidonic acid metabolism. Moreover, CPT1, SEP1, IL-6, IL-10, TNF-α, TGF-β1, Glu, and LD were associated with the glycerophospholipid metabolism. These regulators may impact hyperuricemia progression by altering metabolic patterns and facilitating different cellular functions. In hyperuricemia patients of Han and Uyghur nationalities, along with healthy individuals, significant differences in CPT1, TGF-1, Glu, and LD were demonstrated by ELISA (p < 0.05). Furthermore, the content of SEP1, IL-6, TGF-β1, Glu, and LD differed considerably between groups of the same ethnicity (p < 0.05). Conclusion Thirty-three differential lipid metabolites involved primarily in the glycerophospholipid metabolic pathway were significantly elevated in hyperuricemia patients compared to healthy individuals. We hypothesized that CPT1、TGF-β1、SEP1、IL-6、Glu, 、LD might influence metabolism and the immune microenvironment in hyperuricemia patients. CPT1, TGF-β1, SEP1, IL-6, Glu, and LD were speculated to increase fatty acid oxidation and mitochondrial oxidative phosphorylation while decreasing glycolysis, affecting metabolism and the immune system microenvironment in hyperuricemia patients.
Improve CTAB method for DNA isolation of Vanda orchids
Authors: Heikrujam Jina , Mazumder Pranab Behari 
Published: February 2023

Abstract
Background: Growing interest in molecular studies and bioinformatics increases in demand for good quality DNA extraction techniques.
Results: We demonstrate an easy and rapid DNA extraction process by modifying many existing ones. The present study focuses on isolation of clean and pure DNAs from the leave explants of Vanda testacea, Vanda ampullacea var. auranticum and Vanda PB Mazumder. Demonstration of the purity of the isolated DNAs is obtained through reproducible PCR amplification with several random primers using 25µl reaction mixture.
Conclusion: The improved CTAB DNA extraction method are practically suited for PCR analysis and this technique is simple, rapid and efficient, and can be used in analysis in situations where large numbers of samples are to be analysed.
Temporal Residual Networks basedbeta-elliptic model and multi-head attentionfor online handwriting signature verification
Authors: Zouari Ramzi , Abbasi Alia , Boubaker Houcine , Kherallah Monji 
Published: February 2023

Abstract
In this work, we proposed a new system for online handwriting sig-nature verification based on beta elliptic modeling and TemporalResidual Neural Networks based Multi-Head Attention model. Thebeta-elliptic modeling was applied to divide the handwriting signaturetrajectory into strokes by inspecting the extremum velocity instantsand extract their dynamic and geometric proprieties. In the verifica-tion process, residual networks based temporal convolution was devel-oped to deals with sequential input data. Furthermore, we appliedMulti head attention model to focus on a few particular aspectsat a time and carry out an efficient and sequential data process-ing . The experiments were done on two public databases SVC-2004and SCUT-MMSIG, and we achieved the state-of-the-art performanceswith an Equal Error Rates equals to 0.114 and 0. 133 respectively.