Miracle-dz/UniFAR-FTUs huggingface dataset:
The Prognostic Value and Potential Mechanism of Tumor-Nutrition-Inflammation Index and Genes in Patients with Advanced Lung Cancer

Background Lung cancer (LC) has the highest mortality rate all over the world. It is necessary to search for novel potential biomarkers that are easily accessible and inexpensive in identifying patients with LC at early stage. Methods A total of 195 patients with advanced LC who have received first-line chemotherapy were involved in this study. The optimized cut-off values of AGR and SIRI (AGR = albumin/globulin; SIRI = neutrophil ∗ monocyte/lymphocyte) were determined by survival function analysis based on R software. COX regression analysis was performed to obtain the independent factors for establishing the nomogram model. A nomogram model comprising these independent prognostic parameters was built for the TNI (tumor-nutrition-inflammation index) score calculation. The predictive accuracy was demonstrated through ROC curve and calibration curves after index concordance. Results The optimized cut-off values of AGR and SIRI were 1.22 and 1.60, respectively. It was revealed that liver metastasis, SCC, AGR, and SIRI were independent prognostic factors in advanced lung cancer by Cox analysis. Afterwards, the nomogram model comprised of these independent prognostic parameters was built for TNI scores calculation. Based on the TNI quartile values, patients were divided into four groups. And it was indicated that higher TNI had worse OS (P < 0.05) via Kaplan–Meier analysis and log-rank test. Moreover, the C-index and 1-year AUC area were 0.756 (0.723–0.788) and 75.62, respectively. There was high consistency shown in the calibration curves between predicted and actual survival proportions in the TNI model. In addition, tumor-nutrition-inflammation index and genes play an important role in LC development that might affect some pathways related to tumor development including cell cycle, homologous recombination, and P53 signaling pathway from a molecular level. Conclusion TNI might be an analytical tool which was practical and precise for survival prediction of patients with advanced LC. Tumor-nutrition-inflammation index and genes play an important role in LC development. A preprint has previously been published [1].
Peripheral perfusion index in critically ill COVID-19 and its association with multiorgan dysfunction

Introduction: Severe cases of COVID-19 presented a high incidence of multi-organ dysfunction syndrome (MODS) during their evolution. This was attributed to a theoretical cytokine storm, where microcirculatory disorders would play a fundamental role, causing these patients to present a sepsis-like pattern as observed in sublingual microcirculation studies. The evidence in this regard is controversial. The Peripheral Perfusion Index is a reliable method to continuously and non-invasively assess the microcirculatory bed, which assesses the pulsatile (PPI) component of the plethysmographic pulse curve. Methods: We conducted a prospective observational study to evaluate the behavior of the PPI in patients with severe respiratory failure due to SARS-CoV-2 and its association with SDOM. Results: We evaluated 60 patients with APACHE II 14.6 ± 4.4 and SOFA 4.7 ± 2.1. 55% of the patients presented SDOM. Perfusion monitoring showed IP values of 5.32 ± 1.87 that were associated with normal lactate levels of 1.49 mmol/L (min 0.89/ max 2.20 mmol/L). The PPI values between the living and the dead did not show a significant difference (p = 0.854) or the presence of SDOM. The PPI values between the patients who presented renal failure, hemodynamics, or perfusion disorders were determined by the presence of hyperlactatemia, and for those who did not present these characteristics, no statistical difference was found; neither when stratified by PaFiO2 ratio. Mortality was 55%. Conclusion: In our series of patients with severe pneumonia due to COVID-19, we found high PPI values, which would correspond to a pattern of capillary recruitment, and the associated organ injury could not be substantiated by this phenomenon.
Transport equation for the mean turbulent energy dissipation rate on the centreline of a fully developed channel flow

The transport equation for the mean turbulent energy dissipation rate $\overline{{\it\epsilon}}$ along the centreline of a fully developed channel flow is derived by applying the limit at small separations to the two-point budget equation. Since the ratio of the isotropic energy dissipation rate to the mean turbulent energy dissipation rate $\overline{{\it\epsilon}}_{iso}/\overline{{\it\epsilon}}$ is sufficiently close to 1 on the centreline, our main focus is on the isotropic form of the transport equation. It is found that the imbalance between the production of $\overline{{\it\epsilon}}$ due to vortex stretching and the destruction of $\overline{{\it\epsilon}}$ caused by the action of viscosity is governed by the diffusion of $\overline{{\it\epsilon}}$ by the wall-normal velocity fluctuation. This imbalance is intrinsically different from the advection-driven imbalance in decaying-type flows, such as grid turbulence, jets and wakes. In effect, the different types of imbalance represent different constraints on the relation between the skewness of the longitudinal velocity derivative $S_{1,1}$ and the destruction coefficient $G$ of enstrophy in different flows, thus resulting in non-universal approaches of $S_{1,1}$ towards a constant value as the Taylor microscale Reynolds number, $R_{{\it\lambda}}$ , increases. For example, the approach is slower for the measured values of $S_{1,1}$ along either the channel or pipe centreline than along the axis in the self-preserving region of a round jet. The data for $S_{1,1}$ collected in different flows strongly suggest that, in each flow, the magnitude of $S_{1,1}$ is bounded, the value being slightly larger than 0.5.
Accounting Gut Microbiota as the Mediator of Beneficial Effects of Dietary (Poly)phenols on Skeletal Muscle in Aging

Sarcopenia, the age-related loss of muscle mass and function increasing the risk of disability and adverse outcomes in older people, is substantially influenced by dietary habits. Several studies from animal models of aging and muscle wasting indicate that the intake of specific polyphenol compounds can be associated with myoprotective effects, and improvements in muscle strength and performance. Such findings have also been confirmed in a smaller number of human studies. However, in the gut lumen, dietary polyphenols undergo extensive biotransformation by gut microbiota into a wide range of bioactive compounds, which substantially contribute to bioactivity on skeletal muscle. Thus, the beneficial effects of polyphenols may consistently vary across individuals, depending on the composition and metabolic functionality of gut bacterial communities. The understanding of such variability has recently been improved. For example, resveratrol and urolithin interaction with the microbiota can produce different biological effects according to the microbiota metabotype. In older individuals, the gut microbiota is frequently characterized by dysbiosis, overrepresentation of opportunistic pathogens, and increased inter-individual variability, which may contribute to increasing the variability of biological actions of phenolic compounds at the skeletal muscle level. These interactions should be taken into great consideration for designing effective nutritional strategies to counteract sarcopenia.
Bronchoscopy Findings during Percutaneous Dilation Tracheostomy: A Single Tertiary Medical Center Experience

Percutaneous dilation tracheostomy (PDT) is a common procedure in intensive care units. Bronchoscopy has been recommended to guide PDT to decrease complication rates, but no study has analyzed bronchoscopy outcomes during PDT. In this retrospective study, we analyzed bronchoscopy findings and clinical outcomes during PDT. We collected data on all patients who underwent PDT between May 2018 and February 2021. All PDT operations were guided by bronchoscopy, and we assessed the airway to the third order of the bronchi. Forty-one patients who underwent PDT were included in this study. The average duration of PDT was 102.8 ± 34.6 s, and the average duration of bronchoscopy was 49.8 ± 43.8 s. No complications related to bronchoscopy and no significant changes in gas exchange or ventilator parameters were noted after the procedure. Fifteen patients (36.6%) exhibited abnormal bronchoscopy findings, including two patients (13.3%) with intra-airway mass lesions and obvious airway obstruction. None of the patients with intra-airway masses could be liberated from mechanical ventilation. This study observed a non-negligibly high incidence of unexpected endotracheal or endobronchial masses in patients with chronic respiratory failure during PDT, and a high rate of weaning failure was noted in these patients. The completion of bronchoscopy during PDT may provide additional clinical benefits.
Some operator splitting methods for convex optimization

Many applications arising in various areas can be well modeled as convex optimization models with separable objective functions and linear coupling constraints. Such areas include signal processing, image processing, statistical learning, wireless networks, etc. If these well-structured convex models are treated as generic models and their separable structures are ignored in algorithmic design, then it is hard to effectively exploit the favorable properties that the objective functions possibly have. Therefore, some operator splitting methods have regained much attention from different areas for solving convex optimization models with separable structures in different contexts. In this thesis, some new operator splitting methods are proposed for convex optimization models with separable structures. We first propose combining the alternating direction method of multiplier with the logarithmic-quadratic proximal regularization for a separable monotone variational inequality with positive orthant constraints and propose a new operator splitting method. Then, we propose a proximal version of the strictly contractive Peaceman-Rachford splitting method, which was recently proposed for the convex minimization model with linear constraints and an objective function in form of the sum of two functions without coupled variables. After that, an operator splitting method suitable for parallel computation is proposed for a convex model whose objective function is the sum of three functions. For the new algorithms, we establish their convergence and estimate their convergence rates measured by the iteration complexity. We also apply the new algorithms to solve some applications arising in the image processing area; and report some preliminary numerical results. Last, we will discuss a particular video processing application and propose a series of new models for background extraction in different scenarios; to which some of the new methods are applicable.
Diabetes-Related Mechanisms of Action Involved in the Therapeutic Effect of Croton Species: A Systematic Review

Over the years, ethnopharmacological and phytochemical investigations have been conducted to understand the potential effects of the Croton genus on several diseases. It has been revealed that these terpenoid-rich species traditionally used to treat gastrointestinal diseases, heal wounds, and relieve pain have a wide range of therapeutic effects; however, those used to treat diabetes, as well as their action mechanisms, have not been reviewed so far. Therefore, the main objective of this review was to compile all Croton species that have shown pharmacological effects against diabetes and describe their action mechanisms. Through a search of the literature, 17 species with hypoglycemic, antihyperglycemic, antilipidemic, antihypertensive, antioxidant, and anti-inflammatory effects were found. Among the mechanisms by which they exerted these effects were the inhibition of α-glucosidases, the promotion of insulin secretion, and the increase in glucose uptake. Interestingly, it was found that some of them may have antihyperglycemic properties, although there were no ethnopharmacological reports that support their traditional use. Moreover, others only presented studies on their hypoglycemic effect in fasting, so further works are encouraged to describe the mechanisms involved in lowering fasting blood glucose levels, such as hepatic glucose production, especially for C. cajucara, C. cuneatus, C. gratissimus var. gratissimus, C. guatemalensis, and C. membranaceus. It is expected that this review contributes to the plant science knowledge of the genus, and it can be used in future references on the identification and development of new molecules/phytomedicines that help in the treatment of diabetes.
Global convergence results for single parent evolution strategies

In this research article, we present theoretical techniques that can be used to investigate and comprehend the convergence behavior patterns of single parent evolution strategies. In the process, we determine instances of divergence or prove log‐linear convergence and estimate the related speed, for a single parent evolution strategies class. The tools and results provided herein entertain a wide range of evolution strategies variants of interest and can be readily adapted for global convergence studies of a multitude of continuous optimization methods, evolving a single solution. Copyright © 2016 John Wiley & Sons, Ltd.
Alteration of Colonic Bacterial and Fungal Composition and Their Inter- and Intra-Kingdom Interaction in Patients with Adenomas with Low-Grade Dysplasia

Colorectal cancer (CRC) develops from pre-cancerous cellular lesions in the gut epithelium and mainly originates from specific types of colonic adenomas with dysplasia. However, gut microbiota signatures among sampling sites in patients with colorectal adenomas with low-grade dysplasia (ALGD) and normal control (NC) remain uncharacterized. To characterize gut microbial and fungal profiles in ALGD and normal colorectal mucosa tissues. We used 16S and ITS1-2 rRNA gene sequencing and bioinformatics analysis on the microbiota of ALGD and normal colorectal mucosa from 40 subjects. Bacterial sequences in the ALGD group showed an increase in Rhodobacterales, Thermales, Thermaceae, Rhodobacteraceae, and several genera, including Thermus, Paracoccus, Sphingobium, and Pseudomonas, compared to the NC group. Fungal sequences in the ALGD group showed an increase in Helotiales, Leotiomycetes, and Basidiomycota, while several orders, families, and genera, including Verrucariales, Russulales, and Trichosporonales, were decreased. The study found various interactions between intestinal bacteria and fungi. The bacterial functional analysis showed increased glycogen and vanillin degradation pathways in the ALGD group. Meanwhile, the fungal functional analysis showed a decrease in pathways related to the biosynthesis of gondoate and stearate, as well as degradation of glucose, starch, glycogen, sucrose, L-tryptophan, and pantothenate, and an increase in the octane oxidation pathway in the ALGD group. The mucosal microbiota in ALGD exhibits altered fungal and microbial composition compared to the NC mucosa, potentially contributing to the development of intestinal cancer by regulating specific metabolic pathways. Therefore, these changes in microbiota and metabolic pathways may be potential markers for diagnosing and treating colorectal adenoma and carcinoma.
Anticancer Effect of Cold Atmospheric Plasma in Syngeneic Mouse Models of Melanoma and Colon Cancer

Cold atmospheric plasma (CAP) may have applications in treating various types of malignant tumors. This study assessed the anticancer effects of CAP using melanoma and colon cancer cell lines. CAP treatment significantly reduced the in vitro viability of melanoma and colon cancer cell lines and had a negligible effect on the viability of normal human melanocytes. Additionally, CAP and epidermal growth factor receptor (EGFR) inhibitor had an additive anticancer effect in a CAP-resistant melanoma cell line. Reactive oxygen and nitrogen species known to be generated by CAP enhanced the anticancer effects of CAP and EGFR inhibitors. The in vivo anticancer activities of CAP were evaluated by testing its effects against syngeneic tumors induced in mice by melanoma and colon cancer cells. CAP treatment reduced tumor volume and weight in both cancer models, with the extent of tumor reduction dependent on the duration and number of CAP treatments. Histologic examination also revealed the tumoricidal effects of CAP in both tumor models. In conclusion, CAP inhibits the growth of mouse melanoma and colon cancer cell lines in vitro and shows tumoricidal effects against mouse models of melanoma and colon cancer in vivo.
Invertible Semi-fragile Video Watermarking Algorithm Used for Content Authentication

This paper proposes an invertible semi-fragile video watermarking algorithm using a hash function to authenticate the MPEG-4 video contents.The proposed algorithm embeds two watermarks into I frame while encoding the YUV video to MPEG-4 format.One watermark using a hash function aims to authenticate the contents and embed the frame number for tamper localization between frames,and the other one based on direct coefficients and low-frequency coefficients is used for the detection of tamper localization within the frame.The experimental results show that the proposed algorithm is able to authenticate the video contents and detect the tamper localization,and it is robust for MPEG-4 compression.In addition,the proposed algorithm is exactly invertible,which means that the original video data is available as long as the watermarked video is credible.
In Vitro Screening for Probiotic Properties of Lactobacillus and Bifidobacterium Strains in Assays Relevant for Non-Alcoholic Fatty Liver Disease Prevention

Non-alcoholic fatty liver disease (NAFLD) is a multifactorial metabolic disorder that poses health challenges worldwide and is expected to continue to rise dramatically. NAFLD is associated with metabolic syndrome, type 2 diabetes mellitus, and impaired gut health. Increased gut permeability, caused by disturbance of tight junction proteins, allows passage of damaging microbial components that, upon reaching the liver, have been proposed to trigger the release of inflammatory cytokines and generate cellular stress. A growing body of research has suggested the utilization of targeted probiotic supplements as a preventive therapy to improve gut barrier function and tight junctions. Furthermore, specific microbial interactions and metabolites induce the secretion of hormones such as GLP-1, resulting in beneficial effects on liver health. To increase the likelihood of finding beneficial probiotic strains, we set up a novel screening platform consisting of multiple in vitro and ex vivo assays for the screening of 42 bacterial strains. Analysis of transepithelial electrical resistance response via co-incubation of the 42 bacterial strains with human colonic cells (Caco-2) revealed improved barrier integrity. Then, strain-individual metabolome profiling was performed revealing species-specific clusters. GLP-1 secretion assay with intestinal secretin tumor cell line (STC-1) found at least seven of the strains tested capable of enhancing GLP-1 secretion in vitro. Gene expression profiling in human biopsy-derived intestinal organoids was performed using next generation sequencing transcriptomics post bacterial co-incubation. Here, different degrees of immunomodulation by the increase in certain cytokine and chemokine transcripts were found. Treatment of mouse primary hepatocytes with selected highly produced bacterial metabolites revealed that indole metabolites robustly inhibited de novo lipogenesis. Collectively, through our comprehensive bacterial screening pipeline, not previously ascribed strains from both Lactobacillus and Bifidobacterium genera were proposed as potential probiotics based on their ability to increase epithelial barrier integrity and immunity, promote GLP-1 secretion, and produce metabolites relevant to liver health.
SARS-CoV-2 Positive Serology and Islet Autoantibodies in Newly Diagnosed Pediatric Cases of Type 1 Diabetes Mellitus: A Single-Center Cohort Study

Acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection, although presenting less severe forms of the disease in children, seems to play a role in the development of other conditions, including type 1 diabetes mellitus (T1DM). After the beginning of the pandemic, an increase in the number of T1DM pediatric patients was observed in several countries, thus leading to many questions about the complex relationship between SARS-CoV-2 infection and T1DM. Our study aimed to highlight possible correlations between SARS-CoV-2 serology and T1DM onset. Therefore, we performed an observational retrospective cohort study that included 158 children diagnosed with T1DM in the period April 2021–April 2022. The presence or absence of SARS-CoV-2 and T1DM-specific antibodies and other laboratory findings were assessed. In the group of patients with positive SARS-CoV-2 serology, a higher percentage had detectable IA-2A antibodies, more children were positive for all three islet autoantibodies determined (GADA, ICA, and IA-2A), and a higher mean HbA1c value was found. No difference existed between the two groups regarding DKA presence and severity. A lower C-peptide level was found in the patients presenting diabetic ketoacidosis (DKA) at T1DM onset. When compared to a group of patients diagnosed before the pandemic, an increased incidence of both DKA and severe DKA, as well as a higher age at diagnosis and higher levels of HbA1c were present in our study group. These findings have important implications for the ongoing monitoring and management of children with T1DM after the COVID-19 pandemic and highlight the need for further research to better understand the complex relationship between SARS-CoV-2 infection and T1DM.
Average-case analysis for combinatorial problems

This thesis considers the average case analysis of algorithms, focusing primarily on NP-hard combinatorial optimization problems. It includes a catalog of distributions frequently used in average-case analysis and a collection of mathematical tools that have been useful in studying these distributions. The bulk of the thesis consists of case-studies in average-case analysis of algorithms. Algorithms for 3-SAT, Subset Sum, Strong Connectivity, Stochastic Minimum Spanning Tree, and Uncapacitated Facility Location are analyzed on random instances.
An analysis of India’s export potential in South Asia under SAFTA

There is a consensus in the literature that higher exports are associated with increased economic growth, productivity, and employment. This paper attempts to analyze India’s export potential in the South Asian region following the South Asian Free Trade Area (SAFTA) agreement. Using panel data, an augmented gravity model analysis is employed for the period from 2004 to 2021. The analysis finds a positive and significant effect of trading countries’ gross domestic product (GDP) on India’s total exports, whereas the effect of the per capita GDP differential between the countries is negative. This paper does not find any significant effect of distance, border, or common language on India’s total exports. The study also finds that from 2004 to 2021, India’s average export potential was positive with three countries (Pakistan, Bangladesh, and the Maldives) and negative with four countries (Nepal, Sri Lanka, Afghanistan, and Bhutan). India had the highest export potential with Pakistan during this period. The study suggests that India must raise its exports to those South Asian Association for Regional Cooperation (SAARC) member nations where it has not been able to export in accordance with its potential and explore trade opportunities with other countries in Asia, Europe, and North America. In this context, it is crucial to focus on trade and infrastructural reforms to boost India’s exports.