Miracle-dz/UniFAR-FTUs huggingface dataset:
Tumor recurrence versus treatment effects in glioma

Background: Gliomas constitute over 90% of primary brain tumors. Accurate identification of glioma recurrence and treatment effects is important, as it can help determine whether to continue with standard adjuvant chemotherapy or to switch to a second-line therapy for recurrence. Our purpose is to compare three dimensional pseudo-continuous arterial spin labeling (3D-pcASL) technique and dynamic susceptibility contrast perfusion magnetic resonance imaging (DSC-MRI) for differentiation tumor recurrence from treatment-related effects in gliomas. Methods: Twenty-nine patients with gliomas previously who showed enlarged, contrast-enhancing lesions within the radiation field after surgery and concurrent chemoradiotherapy (CCRT) were assessed with 3D-pcASL and DSC-MRI. These patients were classified into 2 groups, tumor recurrence group (n = 17) and treatment effects group (n = 12), based on pathologic analysis or clinical-radiologic follow-up. The perfusion imaging quality was assessed using a 3-point scale (1 = poor imaging, 2 = moderate imaging, and 3 = good imaging). Comparison for perfusion imaging-quality score between the 2 techniques was performed with Wilcoxon one-sample test. Quantitative analyses were performed between the 2 groups with cerebral blood flow values (ASL-CBF), relative cerebral blood flow values (ASL-rCBF, DSC-rCBF), and relative cerebral blood volume values (DSC-rCBV) using Wilcoxon one-sample test. The intra-class correlation coefficient (ICC) statistics were calculated for testing intrareader variability in regions of interest (ROIs) measurement of all perfusion parameters. Results: The imaging-quality score of 3D-pcASL was higher than that of DSC-MRI (P = .01). The perfusion parameters between tumor recurrence group and treatment effects group had statistically significant differences. There was a significant correlation between ASL-rCBF and DSC-rCBF values (r = 0.803), between ASL-rCBF and DSC-rCBV values (r = 0.763), and between DSC-rCBF and DSC-rCBV (r = 0.907). A receiver operating characteristic (ROC) curve analysis was performed for significant results of perfusion parameters between the 2 groups. Using a cutoff value of 1.110, ASL-rCBF showed the maximum area under the ROC curve (AUC). However, there were no significant differences among different AUCs. The ICC demonstrated excellent agreement for ROIs measurements of ASL-CBF (ICC = 0.9636), dynamic susceptibility contrast- cerebral blood flow (DSC-CBF) (ICC = 0.8508), and dynamic susceptibility contrast-cerebral blood volume (DSC-CBV) (ICC = 0.8543). Conclusion: 3D-pcASL is an alternative perfusion method to DSC-MRI for the differentiation between tumor recurrence and treatment effects in gliomas. 3D-pcASL is noninvasive and shows fewer susceptibility artifacts than DSC-MRI.
Modeling of transdermal drug delivery with a microneedle array

Transdermal drug delivery is generally limited by the extraordinary barrier properties of the stratum corneum, the outer 10–15 µm layer of skin. A conventional needle inserted across this barrier and into deeper tissues could effectively deliver drugs. However, it would lead to infection and cause pain, thereby reducing patient compliance. In order to administer a frequent injection of insulin and other therapeutic agents more efficiently, integrated arrays with very short microneedles were recently proposed as very good candidates for painless injection or extraction. A variety of microneedle designs have thus been made available by employing the fabrication tools of the microelectronics industry and using materials such as silicon, metals, polymers and glass with feature sizes ranging from sub-micron to nanometers. At the same time, experiments were also made to test the capability of the microneedles to inject drugs into tissues. However, due to the difficulty encountered in measurement, a detailed understanding of the spatial and transient drug delivery process still remains unclear up to now. To better grasp the mechanisms involved, quantitative theoretical models were developed in this paper to simultaneously characterize the flow and drug transport, and numerical solutions were performed to predict the kinetics of dispersed drugs injected into the skin from a microneedle array. Calculations indicated that increasing the initial injection velocity and accelerating the blood circulation in skin tissue with high porosity are helpful to enhance the transdermal drug delivery. This study provides the first quantitative simulation of fluid injection through a microneedle array and drug species transport inside the skin. The modeling strategy can also possibly be extended to deal with a wider range of clinical issues such as targeted nanoparticle delivery for therapeutics or molecular imaging.
Enabling High-Quality Untethered Virtual Reality

Today's virtual reality (VR) headsets require a cable connection to a PC or game console. This cable significantly limits the player's mobility and, hence, her VR experience. The high data rate requirement of this link (multiple Gbps) precludes its replacement by WiFi. Thus, in this paper, we focus on using mmWave technology to deliver multi-Gbps wireless communication between VR headsets and their game consoles. We address the two key problems that prevent existing mmWave links from being used in VR systems. First, mmWave signals suffer from a blockage problem, i.e., they operate mainly in line-of-sight and can be blocked by simple obstacles such as the player lifting her hand in front of the headset. Second, mmWave radios use highly directional antennas with very narrow beams; they work only when the transmitter's beam is aligned with the receiver's beam. Any small movement of the headset can break the alignment and stall the data stream. We present MoVR, a novel system that allows mmWave links to sustain high data rates even in the presence of a blockage and mobility. MoVR does this by introducing a smart mmWave mirror and leveraging VR headset tracking information. We implement MoVR and empirically demonstrate its performance using an HTC VR headset.
Model-Based STFT Phase Recovery for Audio Source Separation

For audio source separation applications, it is common to estimate the magnitude of the short-time Fourier transform (STFT) of each source. In order to further synthesize time-domain signals, it is necessary to recover the phase of the corresponding complex-valued STFT. Most authors in this field choose a Wiener-like filtering approach, which boils down to use the phase of the original mixture. In this paper, a different standpoint is adopted. Many music events are partially composed of slowly varying sinusoids and the STFT phase increment over time of those frequency components takes a specific form. This allows phase recovery by an unwrapping technique once a short-term frequency estimate has been obtained. Herein, a novel iterative source separation procedure is proposed that builds upon these results. It consists in minimizing the mixing error by means of the auxiliary function method. This procedure is initialized by exploiting the unwrapping technique in order to generate estimates that benefit from a temporal continuity property. Experiments conducted on realistic music pieces show that, given accurate magnitude estimates, this procedure outperforms the state-of-the-art consistent Wiener filter.
Towards Automatic Generation of Product Reviews from Aspect-Sentiment Scores

Data-to-text generation is very essential and important in machine writing applications. The recent deep learning models, like Recurrent Neural Networks (RNNs), have shown a bright future for relevant text generation tasks. However, rare work has been done for automatic generation of long reviews from user opinions. In this paper, we introduce a deep neural network model to generate long Chinese reviews from aspect-sentiment scores representing users’ opinions. We conduct our study within the framework of encoder-decoder networks, and we propose a hierarchical structure with aligned attention in the Long-Short Term Memory (LSTM) decoder. Experiments show that our model outperforms retrieval based baseline methods, and also beats the sequential generation models in qualitative evaluations.
Boston Naming Test (BNT) original, Brazilian adapted version and short forms: normative data for illiterate and low-educated older adults

ABSTRACT Background: The aims of this study were (1) to describe and compare the performance of illiterate and low-educated older adults, without evidence of cognitive impairment, on different versions of the Boston Naming Test (BNT) original, Brazilian adapted, abbreviated 30-item (even and odd) and 15-item from the CERAD (Consortium to Establish a Registry for Alzheimer's Disease) battery; (2) to compare performance on the original versus adapted versions of the BNT. Methods: A total of 180 healthy older adults (60 years or older) were stratified according to educational level (0, 1–2, and 3–4 years), and age (60–69, 70–79, and ≥ 80 years). The protocol comprised the following instruments: Mini-Mental State Examination (MMSE), Brief Cognitive Screening Battery (BCSB), Functional Activities Questionnaire (FAQ), Geriatric Depression Scale (GDS), and the BNT. Results: The illiterate participants had poorer performance than the educated participants. The performance of the two educated groups was similar on all versions of the BNT. A higher number of correct responses were observed on the adapted BNT than on the original BNT in all three education groups. Conclusions: The adapted BNT appears to be the most suitable for use in the low-educated Brazilian population. The present study provided normative data for low-educated elderly on several different versions of the BNT, which may be helpful in diagnosing naming deficits among elderly in these strata of the population.
The Interplay between G-quadruplex and Transcription

Abstract: G4 DNA is a non-canonical DNA structure consisting of a stacked array of G-quartets held together by base pairing between guanine bases. The formation of G4 DNA requires a cluster of guanine-runs within a strand of DNA. Even though the chemistry of this remarkable DNA structure has been under investigation for decades, evidence supporting the biological relevance of G4 DNA has only begun to emerge and point to very important and conserved biological functions. This review will specifically focus on the interplay between transcription and G4 DNA and discuss two alternative but interconnected perspectives. The first part of the review will describe the evidence substantiating the intriguing idea that a shift in DNA structural conformation could be another layer of non-genetic or epigenetic regulator of gene expression and thereby an important determinant of cell fate. The second part will describe the recent genetic studies showing that those genomic loci containing G4 DNA-forming guanine-rich sequences are potential hotspots of genome instability and that the level and orientation of transcription is critical in the materialization of genome instability associated with these sequences.
A new concordance measure for risk prediction models in external validation settings

Concordance measures are frequently used for assessing the discriminative ability of risk prediction models. The interpretation of estimated concordance at external validation is difficult if the case‐mix differs from the model development setting. We aimed to develop a concordance measure that provides insight into the influence of case‐mix heterogeneity and is robust to censoring of time‐to‐event data.
Feasibility and Effectiveness of Intervention Programmes Integrating Functional Exercise into Daily Life of Older Adults: A Systematic Review

Background: Traditionally, exercise programmes for improving functional performance and reducing falls are organised as structured sessions. An alternative approach of integrating functional exercises into everyday tasks has emerged in recent years. Objectives: Summarising the current evidence for the feasibility and effectiveness of interventions integrating functional exercise into daily life. Methods: A systematic literature search was conducted including articles based on the following criteria: (1) individuals ≥60 years; (2) intervention studies of randomised controlled trials (RCTs) and non-randomised studies (NRS); (3) using a lifestyle-integrated approach; (4) using functional exercises to improve strength, balance, or physical functioning; and (5) reporting outcomes on feasibility and/or effectiveness. Methodological quality of RCTs was evaluated using the PEDro scale. Results: Of 4,415 articles identified from 6 databases, 14 (6 RCTs) met the inclusion criteria. RCT quality was moderate to good. Intervention concepts included (1) the Lifestyle-integrated Functional Exercise (LiFE) programme integrating exercises into everyday activities and (2) combined programmes using integrated and structured training. Three RCTs evaluated LiFE in community dwellers and reported significantly improved balance, strength, and functional performance compared with controls receiving either no intervention, or low-intensity exercise, or structured exercise. Two of these RCTs reported a significant reduction in fall rate compared with controls receiving either no intervention or low-intensity exercise. Three RCTs compared combined programmes with usual care in institutionalised settings and reported improvements for some (balance, functional performance), but not all (strength, falls) outcomes. NRS showed behavioural change related to LiFE and feasibility in more impaired populations. One NRS comparing a combined home-based programme to a gym-based programme reported greater sustainability of effects in the combined programme. Conclusions: This review provides evidence for the effectiveness of integrated training for improving motor performances in older adults. Single studies suggest advantages of integrated compared with structured training. Combined programmes are positively evaluated in institutionalised settings, while little evidence exists in other populations. In summary, the approach of integrating functional exercise into daily life represents a promising alternative or complement to structured exercise programmes. However, more RCTs are needed to evaluate this concept in different target populations and the potential for inducing behavioural change.
Characterization of Ultra High Molecular Weight Polyethylene Nano Composites with Mg0.15Ni0.15Zn0.70Fe2O3

Ultra high molecular weight polyethylene has been commonly used as a biomaterial for total joint replacements. This thesis concerns with the characterization of nano composites of ultra high molecular weight polyethylene (UHMWPE) with Mg0.15Ni0. 15Zn0.70Fe2O3 using various analytic techniques such as fourier transform-infrared (FTIR) spectroscopy, differential scanning calorimetry (DSC), and thermo gravimetric analysis (TGA). An accelerating aging of three different samples, two commercial and one laboratory grade UHMWPE purchased from Sigma Aldrich was done to study the thermal stability of UHMWPE, and the results were checked with FTIR spectroscopy. The FTIR data revealed that UHWMPE purchased from Sigma Aldrich had the highest thermal stability. Therefore, UHMWPE purchased from Sigma Aldrich was used for further studies and preparation of nano composites with 1wt% and 2wt% Mg0.15Ni0. 15Zn0.70Fe2O3 using the ball milling method. FTIR data show significant alterations as far as material degradation and crosslinking is concerned. The absorbance in the region 1650-1850 cm-1 and 3000-3700 cm-1 significantly increases due to the enhance of CH2 bending to stretching ratio with the incorporation of Mg0.15Ni0. 15Zn0.70Fe2O3. As far as thermal stability is concerned, composites with 1 % of Mg0.15Ni0. 15Zn0.70Fe2O3 contents were less stable compared to pure UHMWPE and UHMWPE composites with 2wt% of nano scale Mg0.15Ni0. 15Zn0.70Fe2O3. The degree of crystallinity obtained from DSC data was 41%, 40%, and 43% for UHMWPE, UHMWPE+1% of Mg0.15Ni0. 15Zn0.70Fe2O3, and UHMWPE+2% of Mg0.15Ni0. 15Zn0.70Fe2O3, respectively. The results of current study are useful while considering the nano composites of UHMWPE with Mg0.15Ni0. 15Zn0.70Fe2O3 in order to enhance the mechanical strength of UHWMPE for industrial as well as medical applications such as orthopedic implants and bullet proof jackets etc.
Calprotectin and the Initiation and Progression of Head and Neck Cancer

Calprotectin (S100A8/A9), a heterodimeric complex of calcium-binding proteins S100A8 and S100A9, is encoded by genes mapping to the chromosomal locus 1q21.3 of the epidermal differentiation complex. Whereas extracellular calprotectin shows proinflammatory and antimicrobial properties by signaling through RAGE and TLR4, intracytoplasmic S100A8/A9 appears to be important for cellular development, maintenance, and survival. S100A8/A9 is constitutively expressed in myeloid cells and the stratified mucosal epithelia lining the oropharyngeal and genitourinary mucosae. While upregulated in adenocarcinomas and other cancers, calprotectin mRNA and protein levels decline in head and neck squamous cell carcinoma (HNSCC). S100A8/A9 is also lost during head and neck preneoplasia (dysplasia). Calprotectin decrease does not correlate with the clinical stage (TNM) of HNSCC. When expressed in carcinoma cells, S100A8/A9 downregulates matrix metalloproteinase 2 expression and inhibits invasion and migration in vitro. S100A8/A9 regulates cell cycle progression and decelerates cancer cell proliferation by arresting at the G2/M checkpoint in a protein phosphatase 2α–dependent manner. In HNSCC, S100A8 and S100A9 coregulate with gene networks controlling cellular development and differentiation, cell-to-cell signaling, and cell morphology, while S100A8/A9 appears to downregulate expression of invasion- and tumorigenesis-associated genes. Indeed, tumor formation capacity is attenuated in S100A8/A9-expressing carcinoma cells in vivo. Hence, intracellular calprotectin appears to function as a tumor suppressor in head and neck carcinogenesis. When compared with S100A8/A9-low HNSCC based on analysis of TCGA, S100A8/A9-high HNSCC shows significant upregulation of apoptosis-related genes, including multiple caspases. Accordingly, S100A8/A9 facilitates DNA damage responses in HNSCC, promotes apoptotic cell death, and confers sensitivity to cisplatin and X-radiation in vitro. In the tumor milieu, loss of S100A8/A9 strongly associates with poor squamous differentiation and higher tumor grading, EGFR upregulation, increased DNA methylation, and, finally, poorer overall survival for patients with HNSCC. Hence, intracellular calprotectin shows a multifaceted protective role against the development of HNSCC.
Revisiting the phylogeography, demography and taxonomy of the frog genus Ptychadena in the Ethiopian highlands with the use of genome-wide SNP data

Understanding the diversification of biological lineages is central to evolutionary studies. To properly study the process of speciation, it is necessary to link micro-evolutionary studies with macro-evolutionary mechanisms. Micro-evolutionary studies require proper sampling across a taxon’s range to adequately infer genetic diversity. Here we use the grass frogs of the genus Ptychadena from the Ethiopian highlands as a model to study the process of lineage diversification in this unique biodiversity hotspot. We used thousands of genome-wide SNPs obtained from double digest restriction site associated DNA sequencing (ddRAD-seq) in populations of the Ptychadena neumanni species complex from the Ethiopian highlands in order to infer their phylogenetic relationships and genetic structure, as well as to study their demographic history. Our genome-wide phylogenetic study supports the existence of approximately 13 lineages clustered into 3 species groups. Our phylogenetic and phylogeographic reconstructions suggest that those endemic lineages diversified in allopatry, and subsequently specialized to different habitats and elevations. Demographic analyses point to a continuous decrease in the population size across the majority of lineages and populations during the Pleistocene, which is consistent with a continuous period of aridification that East Africa experienced since the Pliocene. We discuss the taxonomic implications of our analyses and, in particular, we warn against the recent practice to solely use Bayesian species delimitation methods when proposing taxonomic changes.
Possible mechanism underlying the association between height and vascular remodeling in elderly Japanese men

Height is reported to be inversely associated with cardiovascular disease. And platelets play an important role in vascular remodeling by supporting CD34-positive cells. To clarify the association between height and platelet, we conducted a cross-sectional study of 219 elderly Japanese men. Since hemoglobin concentration is influenced by vascular remodeling activity, an analysis stratified by hemoglobin level was performed. An inverse association was seen between height and platelet count in subjects with a high hemoglobin concentration (≥ 14.5 g/dL), but not in subjects with a low hemoglobin concentration (< 14.5 g/dL). The standardized parameter estimates (β) were β = −0.22, p = 0.019 for subjects with high hemoglobin, and β = −0.01, p = 0.931 for subjects with low hemoglobin. We also found a positive association between platelets and carotid intima media thickness (CIMT) and circulating CD34-positive cells in subjects with high hemoglobin (partial correlation coefficient (r) = 0.21, p = 0.037 and r = 0.40, p =< 0.001), but not in subjects with low hemoglobin (r = 0.04, p = 0.710 and r = 0.06, p = 0.544). In subjects with a high hemoglobin concentration, platelets were inversely associated with height, and positively associated with CIMT and circulating CD34-positive cells. These results indicate that subjects with a short stature activate vascular remodeling to a much greater extent than subjects with a tall stature.
Dietary patterns and semen quality: a systematic review and meta‐analysis of observational studies

A number of studies have examined the association between dietary patterns and semen quality, but the findings have been inconclusive. Herein, we conducted a systematic review and meta‐analysis of observational studies to assess the association between dietary patterns and semen quality. PubMed, Cochrane library, Science direct, Scopus, Google Scholar, and ISI web of science databases were searched up to August 2016 for observational studies assessing the association between common dietary patterns and sperm quality markers. Data were pooled by the generic inverse variance method with random effects and expressed as mean differences with 95% confidence intervals (CIs). Heterogeneity was assessed (Cochrane Q‐statistic) and quantified (I2‐statistic). The Newcastle‐Ottawa Scale assessed study quality. Six eligible studies, involving 8207 participants, were included in our systematic review and meta‐analysis. The pooled mean difference of sperm concentration for the healthy dietary pattern versus unhealthy dietary pattern intake was mean difference: 0.66; 95% CI, 0.305–1.016; p < 0.001. In comparison with those who had the highest adherence to healthy dietary pattern, individuals in the lowest adherence had significantly lower level of sperm concentration. However, no significant association was seen between eating patterns and other semen quality. Healthy dietary pattern seems to be associated with elevated sperm concentration level. Further longitudinal studies are needed to clarify this relationship.