Miracle-dz/UniFAR-FTUs huggingface dataset:
Combined Modulation of Tumor Metabolism by Metformin and Diclofenac in Glioma

Glioblastoma remains a fatal diagnosis. Previous research has shown that metformin, which is an inhibitor of complex I of the respiratory chain, may inhibit some brain tumor initiating cells (BTICs), albeit at dosages that are too high for clinical use. Here, we explored whether a combined treatment of metformin and diclofenac, which is a non-steroidal anti-inflammatory drug (NSAID) shown to inhibit glycolysis by interfering with lactate efflux, may lead to additive or even synergistic effects on BTICs (BTIC-8, -11, -13 and -18) and tumor cell lines (TCs, U87, and HTZ349). Therefore, we investigated the functional effects, including proliferation and migration, metabolic effects including oxygen consumption and extracellular lactate levels, and effects on the protein level, including signaling pathways. Functional investigation revealed synergistic anti-migratory and anti-proliferative effects of the combined treatment with metformin and diclofenac on BTICs and TCs. Signaling pathways did not sufficiently explain synergistic effects. However, we observed that metformin inhibited cellular oxygen consumption and increased extracellular lactate levels, indicating glycolytic rescue mechanisms. Combined treatment inhibited metformin-induced lactate increase. The combination of metformin and diclofenac may represent a promising new strategy in the treatment of glioblastoma. Combined treatment may reduce the effective doses of the single agents and prevent metabolic rescue mechanisms. Further studies are needed in order to determine possible side effects in humans.
Association of elevated blood serum high-sensitivity C-reactive protein levels and body composition with chronic kidney disease

Abstract Chronic kidney disease (CKD) is a risk factor for cardiovascular diseases and is associated with an increase in all-cause mortality. Studies regarding association among various body compositions in different inflamed states and the risk of CKD were rare. We aimed to evaluate the relationship among body composition, high-sensitivity C-reactive protein (hsCRP) level, and the risk of CKD. This was a retrospective cross-sectional study using annual health examination data from 2 medical centers in northern and southern Taiwan between January and December 2015. We performed a variance analysis of the estimated glomerular filtration rate (eGFR) distribution in groups based on hsCRP and body fat percentage (BFP), and a multivariate logistic regression model was used to assess the relationship among BFP, hsCRP levels, and CKD. A total of 10,267 subjects aged ≥18 years undergoing health examination were analyzed. In our study, overweight/obese patients were associated with increased risk of CKD. Nevertheless, in subjects with elevated hsCRP level, overweight/obese group with a higher BFP had a lower risk of CKD as compared with overweight/obese with normal BFP group (for BMI ≧ 23 kg/m2, high BFP/high hsCRP: odds ratio [OR] for CKD 1.86, 95% confidence interval [CI] = 1.10–3.17, P = .02; normal BFP/high hsCRP group: OR 2.32, 95% CI = 1.23–4.37, P = .01) after adjusting for various confounders. Our findings suggest that various body compositions in different inflamed states may interfere with the risk of CKD. These results provide an important method for the early detection of impaired renal function by identifying various body compositions and inflammation states to detect CKD at an earlier stage.
Corneal Biomechanical Properties of Keratoconic Eyes Following Penetrating Keratoplasty

Objectives: To investigate the corneal biomechanical properties of keratoconic eyes following penetrating keratoplasty (PKP). Materials and Methods: Thirty-five patients (70 eyes) were enrolled to this prospective study. Operated and contralateral keratoconic eyes were defined as Group 1 and 2, respectively. All patients underwent ophthalmological examination and measurements of corneal biomechanical properties by Ocular Response Analyzer (ORA), intraocular pressure (IOP) by Goldmann applanation tonometry, and central corneal thickness (CCT) by Pentacam. Shapiro-Wilk W test was performed to test normality of the data. The statistical significance was evaluated with the paired t-test and Wilcoxon signed ranks test. Pearson correlation and Spearman rho tests were used for correlation analysis. Results: The average age and male/female ratio were 31.34±11.65 (15-60) years and 21/14, respectively. The mean values of the data obtained from Group 1 and 2 respectively were: corneal hysteresis (CH): 9.35±1.66, 8.18±1.84 mmHg (p=0.013), corneal resistance factor (CRF): 9.48±1.96, 7.14±2.05 mmHg (p<0.001), IOPcc: 16.90±4.32, 14.26±3.69 mmHg (p=0.004), IOPg: 15.45±4.61, 10.91±3.97 mmHg (p<0.001), IOPapl: 14.26±3.11, 13.09±2.54 mmHg (p=0.046), and central corneal thickness (CCT): 545.64±60.82, 442.60±68.14 μM (p<0.001). The positive correlation between CH and CRF was moderate (r=0.444) in Group 1 and strong (r=0.770) in Group 2. There was a moderate negative correlation between CH and IOPcc in both groups (r=-0.426, r=-0.423), but CH was not correlated with IOPg or IOPapl in either group. There were weak to strong positive correlations between CRF and all IOP values in both groups. There was no correlation between CRF and CCT in Group 1 (r=0.075) and a very weak correlation in Group 2 (r=0.237). Only IOPcc and IOPg were strongly correlated in both groups. Conclusion: Better understanding of corneal biomechanical properties is essential for elucidating the pathophysiology and diagnosis of several corneal pathologies such as keratoconus. The biomechanical properties of keratoconic eyes seem to be closer to normal values after PKP.
A Framework for Speech Recognition Benchmarking

Over the past few years, the number of APIs for automated speech recognition (ASR) has signiﬁcantly increased. It is often time-consuming to evaluate how the performance of these ASR systems compare with each other, and against newly proposed algorithms. In this paper, we present a lightweight, open source 1 framework that allows users to easily benchmark ASR APIs on the corpora of their choice. The framework currently supports 7 ASR APIs and is easily extendable to more APIs
Five-Golden-Flowers Tea: Green Extraction and Hepatoprotective Effect against Oxidative Damage

The consumption of herbal teas has become popular in recent years due to their attractive flavors and outstanding antioxidant properties. The Five-Golden-Flowers tea is a herbal tea consisting of five famous edible flowers. The effects of microwave-assisted extraction parameters on the antioxidant activity of Five-Golden-Flowers tea were studied by single-factor experiments, and further investigated using response surface methodology. Under the optimal parameters (53.04 mL/g of solvent/material ratio, 65.52 °C, 30.89 min, and 500 W), the ferric-reducing antioxidant power, Trolox equivalent antioxidant capacity, and total phenolic content of the herbal tea were 862.90 ± 2.44 µmol Fe2+/g dry weight (DW), 474.37 ± 1.92 µmol Trolox/g DW, and 65.50 ± 1.26 mg gallic acid equivalent (GAE)/g DW, respectively. The in vivo antioxidant activity of the herbal tea was evaluated on alcohol-induced acute liver injury in mice. The herbal tea significantly decreased the levels of aspartate aminotransferase, total bilirubin, and malonaldehyde at different doses (200, 400, and 800 mg/kg); improved the levels of liver index, serum triacylglycerol, and catalase at dose of 800 mg/kg. These results indicated its role in alleviating hepatic oxidative injury. Besides, rutin, chlorogenic acid, epicatechin, gallic acid, and p-coumaric acid were identified and quantified by high performance liquid chromatography (HPLC), which could contribute to the antioxidant activity of the herbal tea.
Novel Character Identification Utilizing Semantic Relation with Animate Nouns in Korean

For identifying speakers of quoted speech or extracting social networks from literature, it is indispensable to extract character names and nominals. However, detecting proper nouns in the novels translated into or written in Korean is harder than in English because Korean does not have a capitalization feature. In addition, it is almost impossible for any proper noun dictionary to include all kinds of character names that have been created or will be created by authors. Fortunately, a previous study shows that utilizing postpositions for animate nouns is a simple and effective tool for character identification in Korean novels without a proper noun dictionary and a training corpus. In this article, we propose a character identification method utilizing the semantic relation with known animate nouns. For 80 novels in Korean, the proposed method increases the micro- and macro-average recall by 13.68% and 11.86%, respectively, while decreasing the micro-average precision by 0.28% and increasing the macro-average precision by 0.07% compared to the previous study. If we focus on characters that are responsible for more than 1% of the character name mentions in each novel, the micro- and macro-average F-measure of the proposed method are 96.98% and 97.32%, respectively.
KMT2A (MLL) rearrangements observed in pediatric/young adult T‐lymphoblastic leukemia/lymphoma: A 10‐year review from a single cytogenetic laboratory

T‐lymphoblastic leukemia/lymphoma (T‐ALL/LBL) accounts for approximately 15% of pediatric and 25% of adult ALL. While the underlying frequency of KMT2A (MLL) gene rearrangements has been identified in approximately 4‐8% of T‐ALL/LBL cases, a paucity of literature is available to characterize further the KMT2A rearrangements in pediatric/young adult T‐ALL/LBL. A 10‐year retrospective review was performed to identify KMT2A rearrangements in specimens sent for T‐ALL/LBL fluorescence in situ hybridization studies in patients under the age of 30 years. Of 806 T‐ALL/LBL FISH studies performed on unique individuals, 27 (3.3%) harbored KMT2A rearrangements. Nineteen patients were male and eight were female (M:F ratio, 2.4:1) with ages ranging from 1 to 20 years (mean 12, median 12). Of the 27 cases, nine (33%) had KMT2A/MLLT1 fusions, eight (30%) had KMT2A/AFDN fusions, two (7%) had KMT2A/ELL fusions, and one (4%) had a KMT2A/MLLT10 fusion. In addition, five (19%) had KMT2A rearrangements with unidentified gene fusion partners and two (7%) had 3’KMT2A deletions. Our results indicate that MLLT1 and AFDN account for the majority (63%) of KMT2A gene partners in pediatric/young adult T‐ALL/LBL, while no KMT2A/AFF1 or KMT2A/MLLT3 fusions were observed despite their common identification in B‐ALL and acute myeloid leukemia, respectively. In addition to diagnostic and prognostic value, detecting specific KMT2A fusions may also be of clinical importance in the era of targeted therapies.
Recent advances in the molecular diagnosis of mucormycosis

ABSTRACT Introduction: Fungal infection burden related to Mucorales has been on the rise with significant associated morbidity and mortality. The major obstacle in the management has been lack of a non-invasive rapid and a reliable diagnostic test. Developing a culture-independent biomarker for the early diagnosis of mucormycosis is a major unmet need in modern mycology. Several approaches have been developed, such as immunohistochemistry (IHC) that can confirm the histopathologic diagnosis of the invasive mold infection, polymerase chain reaction (PCR) on formalin-fixed paraffin-embedded (FFPE) or fresh tissue, body fluids such as bronchoalveolar fluid (BAL), and detection directly from serum/blood. Serologic tests, matrix assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF/MS), metabolomics and metagenomic shotgun sequencing are other evolving technologies. Area covered: In this review paper, we report the current status of the molecular diagnostics in the diagnosis of mucormycosis: serologic tests, IHC, PCR, protein-based with MALDI-TOF, metabolomics and metagenomic sequencing. Expert commentary: This review will conclude with an expert commentary on the potential uses/challenges of the currently available tests and the future of molecular diagnostics for mucormycosis.
Unbiased Learning to Rank: Theory and Practice

Implicit feedback (e.g., user clicks) is an important source of data for modern search engines. While heavily biased [8, 9, 11, 27], it is cheap to collect and particularly useful for user-centric retrieval applications such as search ranking. To develop an unbiased learning-to-rank system with biased feedback, previous studies have focused on constructing probabilistic graphical models (e.g., click models) with user behavior hypothesis to extract and train ranking systems with unbiased relevance signals. Recently, a novel counterfactual learning framework that estimates and adopts examination propensity for unbiased learning to rank has attracted much attention. Despite its popularity, there is no systematic comparison of the unbiased learning-to-rank frameworks based on counterfactual learning and graphical models. In this tutorial, we aim to provide an overview of the fundamental mechanism for unbiased learning to rank. We will describe the theory behind existing frameworks, and give detailed instructions on how to conduct unbiased learning to rank in practice.
Integration of Arbuscular Mycorrhizal Fungi to Grape Vine (Vitis vinifera L.) in Nursery Stage

The Arbuscular Mycorrhizal (AM) association is being considered as the commonest Mycorrhizal type involved in grape community. Low population density of these useful fungi in vineyard soil suggests the need for manual inoculation of grapevine plantlets at the nursery stage. The influence of three commercial Arbuscular Mycorrhizal fungi strains (Glomus intraradious, G. mosseae, G. fasciculatus and a mixture of them) on growth and biochemical status of four grapevine varieties (Shahroodi, Asgari, Keshmeshi and Khalili) was investigated under greenhouse conditions. Rooted plantlets derived from hardwood cuttings were transplanted in pots containing leaf mold and sand (1:1) followed by inoculation with different fungal inoculums. Various physiological and biochemical parameters were measured at 30 days intervals. The percentage of root colonization was found to be slightly different amongst inoculated vines but it was found to be significantly different with non-inoculated, control plants. Most growth related parameters (vine length, shoot length and leaf area) were enhanced following Mycorrhization but root length and number of leaves were not significantly affected by any fungal intervention. Treated plants typically showed more obvious modifications in their biochemical status. The chlorophyll content (especially "b" and total), total root and shoot phenols were raised in treated plants. The chlorophyll "a" and total soluble sugars were not statistically different in inoculated and control plants. The overall results of the present study suggest that AM fungi can be manually applied, as an easy and economical approach during nursery production, to boost the physiological and biochemical status of the treated plants and production of high quality healthy plantlets.
Metabolic Syndrome and the Risk of Breast Cancer and Subtypes by Race, Menopause and BMI

The objective of this study was to investigate the association of metabolic syndrome (MetS) with the risk of invasive breast cancer and molecular subtypes across race, menopause, and body mass index (BMI) groups. We examined the association of metabolic syndrome and its components with risk of invasive breast cancer among 94,555 female participants of the National Institute of Health-American Association of Retired Persons (NIH-AARP) Diet and Health Study, accounting for ductal carcinoma in situ as a competing risk. Cox proportional hazard regression with the Fine and Gray method was used to generate hazard ratios (HR) and 95% confidence intervals (CI) adjusting for baseline sociodemographic, behavioral, and clinical covariates. During a mean follow-up of 14 years, 5380 (5.7%) women developed breast cancer. Overall, MetS at baseline was associated with a 13% increased risk of breast cancer compared to women without MetS (HR: 1.13, 95% CI: 1.00, 1.27); similar estimates were obtained among postmenopausal women (HR: 1.14, 95% CI: 1.01, 1.29). MetS was associated with a slight but non-significantly increased risk of breast cancer among those with both normal weight and overweight/obesity, and those with estrogen receptor positive breast cancer subtype. In the NIH-AARP cohort, MetS was associated with an increased risk of breast cancer. Further studies are needed to definitively evaluate the association of MetS with triple negative breast cancer subtypes across all levels of BMI.
Large-Scale Ontology Matching

Ontologies have become a popular means of knowledge sharing and reuse. This has motivated the development of large-sized independent ontologies within the same or different domains with some overlapping information among them. To integrate such large ontologies, automatic matchers become an inevitable solution. However, the process of matching large ontologies has high space and time complexities. Therefore, for a tool to efficiently and accurately match these large ontologies within the limited computing resources, it must have techniques that can significantly reduce the high space and time complexities associated with the ontology matching process. This article provides a review of the state-of-the-art techniques being applied by ontology matching tools to achieve scalability and produce high-quality mappings when matching large ontologies. In addition, we provide a direct comparison of the techniques to gauge their effectiveness in achieving scalability. A review of the state-of-the-art ontology matching tools that employ each strategy is also provided. We also evaluate the state-of-the-art tools to gauge the progress they have made over the years in improving alignment’s quality and reduction of execution time when matching large ontologies.
miRNA-130a Significantly Improves Accuracy of SGA Nutritional Assessment Tool in Prediction of Malnutrition and Cachexia in Radiotherapy-Treated Head and Neck Cancer Patients

Background: Investigation of novel cachexia-related markers is one of the major challenges in contemporary oncology. Among studied markers, the miRNA seems to be promising due to its possibility to regulate genes responsible for induction of inflammatory response, muscle atrophy and fat tissue wasting. The aim of the study was to investigate the role of blood-circulating miRNA-130a in prediction of cancer cachexia in 70 head and neck cancer patients (HNC) subjected to radiotherapy. Moreover, diagnostic accuracy of SGA (Subjective Global Assessment) scoring and miRNA-130a level was evaluated in various cachexia models. Results: miRNA-130a level negatively correlated with plasma TNF-α concentration (r = −0.560; p < 0.001). Patients with low miRNA expression had over 3-fold higher risk of body mass index (BMI) decrease below 18.5 after the termination of therapy; over 6-fold higher risk of losing over 5% of body weight and higher risk of >10% weight reduction odds ratio (OR) = 14.18 compared to other cases. ROC analysis performed for miRNA-130a allowed to distinguish cachectic patients (body weight loss >5%) from moderately or mildly malnourished ones with optimal sensitivity of 79.4% and specificity of 80.8% area under the curve (AUC) = 0.865). miRNA significantly improved nutritional assessment conducted using SGA, achieving the following values: sensitivity 88.6%, specificity 94.3%, positive predictive value (PPV) 93.9%, negative predictive value (NPV). 89.2%. Conclusion: miRNA-130a demonstrates potential clinical utility in prediction of cachexia prior to the therapy in HNC patients. Simultaneous use of both tools—SGA and miRNA—significantly improved the accuracy in the diagnosis of cachexia.
Lack of Communication about Medical Marijuana Use between Doctors and Their Patients

Introduction: Medical marijuana is now permitted in most states, but it is not clear whether primary care physicians (PCPs) are aware of or recommend its use in their patients. Methods: We distributed paired surveys to PCPs and their patients to assess the frequency of patient marijuana use and communication with PCPs about use. Results: Of 242 patients surveyed, 22% reported marijuana use in the past 6 months, and 61% of these identified as medical marijuana users. PCPs did not complete state forms to recommend medical marijuana for any of the surveyed medical marijuana users. PCPs were aware of marijuana use in their patients only 53% of the time. PCPs identified conditions they believed could be adversely affected by marijuana use in 31% of users. Conclusion: There is poor communication between patients and PCPs about medical marijuana use, which is being sanctioned by physicians other than patients' PCPs. We suggest more frequent assessment of and discussion about marijuana use in patients, particularly in states that have approved medical marijuana.
A Word is Worth a Thousand Ratings: Augmenting Ratings using Reviews for Collaborative Filtering

In order to provide personalized recommendations, collaborative filtering algorithms take into account several kinds of feedback from the user. A common kind of feedback, which was largely neglected by the Academic community until recently, is textual reviews that are written by the users. Reviews may reveal a great deal about both the users and the items, and indeed in recent years, several algorithms that make use of textual reviews were proposed. However, it is not entirely clear how this signal should be combined with traditional methods that address other kinds of feedback (such as an explicit numeric rating). In this paper, we introduce a novel algorithm, named Collaborative Filtering using Compatibility Vectors (CFCV), which builds upon recent advances in natural language understanding, and uses a neural network in order to provide a meaningful representation of the reviews. This allows to enhance collaborative filtering (particularly, factor methods ) with this new kind of information, in a way that is both natural and effective. We validate our algorithm by conducting experiments on several benchmark datasets, showing that it outperforms the existing methods. Moreover, underlying our solution there is a general architecture that may be further explored.