Miracle-dz/UniFAR-FTUs huggingface dataset:
MicroRNA Alterations for Diagnosis, Prognosis, and Treatment of Osteoporosis: A Comprehensive Review and Computational Functional Survey

Osteoporosis (OP) is a systemic bone disease with a series of clinical symptoms. The use of screening biomarkers in OP management is therefore of clinical significance, especially in the era of precision medicine and intelligent healthcare. MicroRNAs (miRNAs) are small, non-coding RNAs with the potential to regulate gene expression at the post-transcriptional level. Accumulating evidence indicates that miRNAs may serve as biomarkers for OP prediction and prevention. However, few studies have emphasized the role of miRNAs in systems-level pathogenesis during OP development. In this article, literature-reported OP miRNAs were manually collected and analyzed based on a systems biology paradigm. Functional enrichment studies were performed to decode the underlying mechanisms of miRNAs in OP etiology and therapeutics in three-dimensional space, i.e., integrated miRNA–gene–pathway analysis. In particular, interactions between miRNAs and three well-known OP pathways, i.e., estrogen–endocrine, WNT/β-catenin signaling, and RANKL/RANK/OPG, were systematically investigated, and the effects of non-genetic factors on personalized OP prevention and therapy were discussed. This article is a comprehensive review of OP miRNAs, and bridges the gap between an understanding of OP pathogenesis and clinical translation.
Poly(ADP-Ribose)Polymerase (PARP) Inhibitors and Radiation Therapy

Poly(ADP-ribose)polymerase-1 (PARP1) is a DNA repair enzyme highly expressed in the nuclei of mammalian cells, with a structure and function that have attracted interest since its discovery. PARP inhibitors, moreover, can be used to induce synthetic lethality in cells where the homologous recombination (HR) pathway is deficient. Several small molecule PARP inhibitors have been approved by the FDA for multiple cancers bearing this deficiency These PARP inhibitors also act as radiosensitizing agents by delaying single strand break (SSB) repair and causing subsequent double strand break (DSB) generation, a concept that has been leveraged in various preclinical models of combination therapy with PARP inhibitors and ionizing radiation. Researchers have determined the efficacy of various PARP inhibitors at sub-cytotoxic concentrations in radiosensitizing multiple human cancer cell lines to ionizing radiation. Furthermore, several groups have begun evaluating combination therapy strategies in mouse models of cancer, and a fluorescent imaging agent that allows for subcellular imaging in real time has been developed from a PARP inhibitor scaffold. Other PARP inhibitor scaffolds have been radiolabeled to create PET imaging agents, some of which have also entered clinical trials. Most recently, these highly targeted small molecules have been radiolabeled with therapeutic isotopes to create radiotherapeutics and radiotheranostics in cancers whose primary interventions are surgical resection and whole-body radiotherapy. In this review we discuss the utilization of these small molecules in combination therapies and in scaffolds for imaging agents, radiotherapeutics, and radiotheranostics. Development of these radiolabeled PARP inhibitors has presented promising results for new interventions in the fight against some of the most intractable cancers.
Functional Biology and Molecular Mechanisms of Host-Pathogen Interactions for Aflatoxin Contamination in Groundnut (Arachis hypogaea L.) and Maize (Zea mays L.)

Aflatoxins are secondary metabolites produced by soilborne saprophytic fungus Aspergillus flavus and closely related species that infect several agricultural commodities including groundnut and maize. The consumption of contaminated commodities adversely affects the health of humans and livestock. Aflatoxin contamination also causes significant economic and financial losses to producers. Research efforts and significant progress have been made in the past three decades to understand the genetic behavior, molecular mechanisms, as well as the detailed biology of host-pathogen interactions. A range of omics approaches have facilitated better understanding of the resistance mechanisms and identified pathways involved during host-pathogen interactions. Most of such studies were however undertaken in groundnut and maize. Current efforts are geared toward harnessing knowledge on host-pathogen interactions and crop resistant factors that control aflatoxin contamination. This study provides a summary of the recent progress made in enhancing the understanding of the functional biology and molecular mechanisms associated with host-pathogen interactions during aflatoxin contamination in groundnut and maize.
Genetic Variants Detection Based on Weighted Sparse Group Lasso

Identification of genetic variants associated with complex traits is a critical step for improving plant resistance and breeding. Although the majority of existing methods for variants detection have good predictive performance in the average case, they can not precisely identify the variants present in a small number of target genes. In this paper, we propose a weighted sparse group lasso (WSGL) method to select both common and low-frequency variants in groups. Under the biologically realistic assumption that complex traits are influenced by a few single loci in a small number of genes, our method involves a sparse group lasso approach to simultaneously select associated groups along with the loci within each group. To increase the probability of selecting out low-frequency variants, biological prior information is introduced in the model by re-weighting lasso regularization based on weights calculated from input data. Experimental results from both simulation and real data of single nucleotide polymorphisms (SNPs) associated with Arabidopsis flowering traits demonstrate the superiority of WSGL over other competitive approaches for genetic variants detection.
Digital human face detection in video sequences via a physiological signal analysis

Abstract. Imagine a future in which computer-generated (CG) human characters become almost indistinguishable from real humans. It is not that far away. Real-time rendering of photorealistic facial animation is just around the corner. To prepare for this world in which CG content will be intermingled with the natural, there is a fundamental need to understand how human beings can preserve the awareness of what is real and what is not. We present a methodology for distinguishing real and CG human faces within the context of multimedia forensics, by exploiting the heart rate as the discriminating feature. The underlying idea is that humans always present a pulse signal that can be automatically extracted from a video sequence depicting their face, while this is not the case for virtual humans. Experimental validation shows the effectiveness of the proposed solution.
Comprehensive measure for evaluating image fusion algorithm

Abstract. Evaluating the performance of image fusion algorithms objectively is still an open problem. We proposed an integrational approach to objective image fusion evaluation based on integrating different existing objective metrics in order to overcome their individual shortcomings. The process of the objective measure construction contains two steps: first, we construct a candidate measure set, where each element contains high evaluation accuracy and low correlation with each other; then, the weights of measures in constructing the target measure are determined dynamically on training image set. Considering that the true quality of fused images is a subjective perception, we introduce assessment indefiniteness when calculating the evaluation accuracy of each measure to reduce the influence of errors of subjective perception. Experiments on various images are conducted to test the effectiveness of the proposed measure. The results have shown that the measure is useful in conjunction with the other objective measures to account for qualitative subjective perception.
Effect of induced emotions on strength in older people

The aim of this study was to determine if induced emotions could improve strength in older people. The importance is that, this could have an impact on life quality. A total of 42 volunteers (24 female and 18 male) with a mean age of 62.18 years (SD = 4.31) from Madrid participated in this study. Participants joined an eight-week program of 45 minutes of weight lifting in machines three times per week. They were split into two groups, the first one having induced emotions prior to training for 15 minutes, and the second one being the control group. Strength was measured by the maximum number of repetitions that participants managed to do before and at the end of the 8 weeks of the training program, there was an improvement in both groups, but the increase was significantly larger in the induced emotions group (p < 0.05) as compared with the other. Induced emotions had positive effects to increase muscle strength in all muscle groups. In conclusion, emotions are not only important but also effective in order to increase strength and possibly life quality in older people.
Feature-enhanced one-stage face detector for multiscale faces

Abstract. The performance of face detection has achieved great progress with the rapid development of the convolutional neural network. However, detecting faces with a wide range of scales is still a challenging and crucial problem, especially for small faces. We focus on designing a strong network architecture, aiming at generating high-quality feature representation to handle the multiscale problem. Specifically, we conduct an in-depth study of three aspects, including feature fusion, attention mechanism, and receptive field, then propose an effective one-stage face detector. First, we design a feature fusion module, which adopts a more effective manner to sufficiently fuse multiscale features for building discriminative feature pyramid representation. Then, we propose an attention enhancement module for introducing the attention mechanism, which makes the network keep more valid information to emphasize the features from facial regions. Finally, we construct a prediction module, which ensures that each detection layer contains rich receptive fields to bring more useful context information. A large number of experiments on the widely used face detection benchmarks (i.e., WIDER FACE, FDDB, PASCAL FACE, and AFW) indicate that the results of our method outperform overwhelming majority of the existing methods and are comparable to the most recent state-of-the-art face detector, which demonstrate that our method is able to detect faces with a wide range of scales effectively.
Multiple-Dose Oral Fosfomycin for Treatment of Complicated Urinary Tract Infections in the Outpatient Setting

Abstract Background Few published studies exist to describe the off-label use of multiple-dose fosfomycin for outpatient treatment of complicated urinary tract infections (UTI). The purpose of this study was to characterize the patients, infections, drug susceptibilities, and outcomes of multiple-dose fosfomycin episodes for outpatient UTI treatment. Methods This retrospective study evaluated patients who received an outpatient prescription for multiple-dose fosfomycin between July 1999 and June 2018. Multiple-dose fosfomycin prescriptions dispensed for UTI prophylaxis were excluded. The primary outcome was clinical resolution (complete resolution of signs and symptoms) of infection within 30 days. Secondary outcomes included descriptions of antibiotics and cultures before and after treatment, 30-day bacteriologic resolution (posttreatment urine culture <103 colony-forming units of the original pathogen), and 90-day healthcare utilizations for UTI or pyelonephritis. Data were analyzed using descriptive statistics. Results Of 171 multiple-dose fosfomycin treatment episodes, the most common regimen was 1 dose every 3 days, mean duration of 6.1 days. Clinical resolution occurred in 115 of 171 (67.3%) episodes, and bacteriologic resolution occurred in 37 of 76 (48.7%) episodes with posttreatment cultures. Most patients used antibiotics or had urine cultures before treatment (81.9% and 97.7%, respectively). Additional antibiotic use, urine cultures, and healthcare utilizations within 90 days posttreatment occurred in 51.5%, 66.1%, and 24.6% of patients, respectively. Conclusions For treating complicated UTI with multiple-dose fosfomycin, clinical resolution occurred in 2 of 3 treatment episodes and bacteriologic resolution occurred in one-half of treatment episodes. Future research is necessary to determine the relative efficacy and safety and optimal dosing regimen, duration, and population for UTI treatment with multiple-dose fosfomycin.
Distributed feedback 2.5-terahertz quantum cascade laser with high-power and single-mode emission

Abstract. The 2.5-terahertz quantum cascade lasers (THz QCLs) based on first-order distributed feedback (DFB) Bragg grating are reported. The loss and threshold gain within different grating duty cycles are calculated according to the mode-coupling theory. The laser output power reaches up to record values of 34.1 mW in pulse mode and 23.4 mW in continuous wave mode at 15 K. The threshold current density is as low as 125 A / cm2. The single-mode emission is achieved, and the side-mode suppression ratio is 12 dB. In addition, the device is bonded together with the other two DFB THz QCLs (2.9 and 3.0 THz) on a copper chip. The simultaneous different wavelength emissions with single mode are successfully realized.
Multimodal Monitoring of Cardiovascular Responses to Postural Changes

Background In the poorly understood relationship between orthostatic hypotension and falls, next to blood pressure (BP), baroreflex sensitivity (BRS) and cerebral autoregulation (CAR) may be key measures. The posture- and movement dependency of orthostatic hypotension requires continuous and unobtrusive monitoring. This may be possible using simultaneous photoplethysmography (PPG), electrocardiography (ECG), and near-infrared spectroscopy (NIRS) signal recordings, from which pulse wave velocity (PWV; potentially useful for BP estimation), BRS and CAR can be derived. The PPG, NIRS and PWV signal correlation with BP and BRS/CAR reliability and validity need to be addressed. Methods In 34 healthy adults (mean age 25 years, inter quartile range 22–45; 10 female), wrist and finger PPG, ECG, bifrontal NIRS (oxygenated and deoxygenated hemoglobin) and continuous BP were recorded during sit to stand and supine to stand movements. Sixteen participants performed slow and rapid supine to stand movements; eighteen other participants performed a 1-min squat movement. Pulse wave velocity (PWV) was defined as the inverse of the ECG R-peak to PPG pulse delay; PPG, NIRS and PWV signal correlation with BP as their Pearson correlations with mean arterial pressure (MAP) within 30 s after the postural changes; BRS as inter beat interval drop divided by systolic BP (SBP) drop during the postural changes; CAR as oxygenated hemoglobin drop divided by MAP drop. BRS and CAR were separately computed using measured and estimated (linear regression) BP. BRS/CAR reliability was defined by the intra class correlation between repeats of the same postural change; validity as the Pearson correlation between BRS/CAR values based on measured and estimated BP. Results The highest correlation with MAP was found for finger PPG and oxygenated hemoglobin, ranging from 0.75–0.79 (sit to stand), 0.66–0.88 (supine to stand), and 0.82–0.94 (1-min squat). BRS and CAR reliability was highest during the different supine to stand movements, ranging from 0.17 – 0.49 (BRS) and 0.42-0.75 (CAR); validity was highest during rapid supine to stand movements, 0.54 and 0.79 respectively. Conclusion PPG-ECG-NIRS recordings showed high correlation with BP and enabled computation of reliable and valid BRS and CAR estimates, suggesting their potential for continuous unobtrusive monitoring of orthostatic hypotension key measures.
Mathematical approaches for improving the efficiency of railway transport

Abstract Current business trends push transport companies to improve the efficiency of their entrepreneurial activities, what is closely related to costs reduction and revenues increase. Many transport companies achieve it empirically, but some mathematical algorithms, mainly from operational research, can be used to improve the efficiency of railway transport by finding the optimal solution of specific problems. The paper is focused on using of selected methods from applied mathematics in railway transport. These methods are used mainly for improving the operational efficiency of the transport company, what tends to decrease overall operating costs. Major impact is done by efficient use of railway vehicles and train staff. It can be achieved by optimization as a flow network problem or assignment problem, what is further described in the paper. Mathematical approaches can also positively influence the whole logistic process.
Role of Viral and Host microRNAs in Immune Regulation of Epstein-Barr Virus-Associated Diseases

Epstein-Barr virus (EBV) is an oncogenic human herpes virus that was discovered in 1964. Viral non-coding RNAs, such as BamHI-A rightward fragment-derived microRNAs (BART miRNAs) or BamHI-H rightward fragment 1-derived miRNAs (BHRF1 miRNA) in EBV-infected cells have been recently reported. Host miRNAs are also upregulated upon EBV infection. Viral and host miRNAs are important in maintaining viral infection and evasion of host immunity. Although miRNAs in EBV-infected cells often promote cell proliferation by targeting apoptosis or cell cycle, this review focuses on the regulation of the recognition of the host immune system. This review firstly describes the location and organization of two clusters of viral miRNAs, then describes evasion from host immune surveillance systems by modulating viral gene expression or inhibiting innate and acquired immunity by viral miRNAs as well as host miRNAs. Another topic is the enigmatic depletion of viral miRNAs in several types of EBV-infected tumor cells. Finally, this review introduces the strong correlation of nasopharyngeal cancer cases with a newly identified single nucleotide polymorphism that enhances BART miRNA promoter activity.
The Effect of Light on Plastid Differentiation, Chlorophyll Biosynthesis, and Essential Oil Composition in Rosemary (Rosmarinus officinalis) Leaves and Cotyledons

It is unclear whether light affects the structure and activity of exogenous secretory tissues like glandular hairs. Therefore, transmission electron microscopy was first used to study plastid differentiation in glandular hairs and leaves of light-grown rosemary (Rosmarinus officinalis “Arp”) plants kept for 2 weeks under ambient light conditions. During our detailed analyses, among others, we found leucoplasts with tubuloreticular membrane structures resembling prolamellar bodies in stalk cell plastids of peltate glandular hairs. To study the effect of darkness on plastid differentiation, we then dark-forced adult, light-grown rosemary plants for 2 weeks and observed occasionally the development of new shoots with elongated internodes and pale leaves on them. Absorption and fluorescence spectroscopic analyses of the chlorophyllous pigment contents, the native arrangement of the pigment-protein complexes and photosynthetic activity confirmed that the first and second pairs of leaf primordia of dark-forced shoots were partially etiolated (contained low amounts of protochlorophyll/ide and residual chlorophylls, had etio-chloroplasts with prolamellar bodies and low grana, and impaired photosynthesis). Darkness did not influence plastid structure in fifth leaves or secretory tissues (except for head cells of peltate glandular hairs in which rarely tubuloreticular membranes appeared). The mesophyll cells of cotyledons of 2-week-old dark-germinated rosemary seedlings contained etioplasts with highly regular prolamellar bodies similar to those in mesophyll etio-chloroplasts of leaves and clearly differing from tubuloreticular membranes of secretory cells. Analyses of the essential oil composition obtained after solid phase microextraction and gas chromatography-mass spectroscopy showed that in addition to light, the age of the studied organ (i.e., first leaf primordia and leaf tip vs. fifth, fully developed green leaves) and the type of the organ (cotyledon vs. leaves) also strongly influenced the essential oil composition. Therefore, light conditions and developmental stage are both important factors to be considered in case of potential therapeutic, culinary or aromatic uses of rosemary leaves and their essential oils.
GlnR Dominates Rifamycin Biosynthesis by Activating the rif Cluster Genes Transcription Both Directly and Indirectly in Amycolatopsis mediterranei

Because of the remarkable efficacy in treating mycobacterial infections, rifamycin and its derivatives are still first-line antimycobacterial drugs. It has been intensely studied to increase rifamycin yield from Amycolatopsis mediterranei, and nitrate is found to provide a stable and remarkable stimulating effect on the rifamycin production, a phenomenon known as “nitrate-stimulating effect (NSE)”. Although the NSE has been widely used for the industrial production of rifamycin, its detailed molecular mechanism remains ill-defined. And our previous study has established that the global nitrogen regulator GlnR may participate in the NSE, but the underlying mechanism is still enigmatic. Here, we demonstrate that GlnR directly controls rifamycin biosynthesis in A. mediterranei and thus plays an essential role in the NSE. Firstly, GlnR specifically binds to the upstream region of rifZ, which leads us to uncover that rifZ has its own promoter. As RifZ is a pathway-specific activator for the whole rif cluster, GlnR indirectly upregulates the whole rif cluster transcription by directly activating the rifZ expression. Secondly, GlnR specifically binds to the upstream region of rifK, which is also characterized to have its own promoter. It is well-known that RifK is a 3-amino-5-hydroxybenzoic acid (AHBA, the starter unit of rifamycin) synthase, thus GlnR can promote the supply of the rifamycin precursor by directly activating the rifK transcription. Notably, GlnR and RifZ independently activate the rifK transcription through binding to different sites in rifK promoter region, which suggests that the cells have a sophisticated regulatory mechanism to control the AHBA biosynthesis. Collectively, this study reveals that GlnR activates the rif cluster transcription in both direct (for rifZ and rifK) and indirect (for the whole rif cluster) manners, which well interprets the phenomenon that the NSE doesn’t occur in the glnR null mutant. Furthermore, this study deepens our understanding about the molecular mechanism of the NSE.
Pod Dehiscence in Hairy Vetch (Vicia villosa Roth)

Hairy vetch, Vicia villosa (Roth), is a cover crop that does not exhibit a typical domestication syndrome. Pod dehiscence reduces seed yield and creates weed problems for subsequent crops. Breeding efforts aim to reduce pod dehiscence in hairy vetch. To characterize pod dehiscence in the species, we quantified visual dehiscence and force required to cause dehiscence among 606 genotypes grown among seven environments of the United States. To identify potential secondary selection traits, we correlated pod dehiscence with various morphological pod characteristics and field measurements. Genotypes of hairy vetch exhibited wide variation in pod dehiscence, from completely indehiscent to completely dehiscent ratings. Mean force to dehiscence also varied widely, from 0.279 to 8.97 N among genotypes. No morphological traits were consistently correlated with pod dehiscence among environments where plants were grown. Results indicated that visual ratings of dehiscence would efficiently screen against genotypes with high pod dehiscence early in the breeding process. Force to dehiscence may be necessary to identify the indehiscent genotypes during advanced stages of selection.