Miracle-dz/UniFAR-FTUs huggingface dataset:
Modeling and simulation of vehicular networks

Vehicular networks are characterized by highly dynamic network topologies, frequent network fragmentations and the fact that movements of vehicles are constrained to pre-defined roadways. Researchers have devoted considerable efforts to the development of innovative protocols and mechanisms to address the demanding quality of service requirements of various vehicular applications, taking into account of these special characteristics. Even though field testing yields more realistic results, it potentially involves more hazards and can be prohibitively expensive when done at scale. Hence, simulation has been the tool of choice for evaluating the performance of vehicular networking protocols and mechanisms. For simulating a wireless communication scenario in a vehicular networking environment, both the mobility of vehicles and the wireless communications between them should be modeled using appropriate traffic and network simulators, respectively. A conversion tool needs to be used to convert the outputs of traffic simulators to trace-files readable by network simulators. Note that in this case the generation of the trace-files takes place before the network simulation begins. However, for some vehicular applications such as safety or traffic applications, the movements of vehicles are affected by the received packets. So, both traffic and network simulators are expected to be running simultaneously and exchanging data. In this paper, we survey a comprehensive set of both traffic and network simulators as well as possible conversion tools and integration alternatives. We believe that this paper helps the researchers new to the field select appropriate vehicular network platforms and provide them with helpful insights as they run their first vehicular simulations.
Radiographic and Clinical Outcomes of Robot-Assisted Posterior Pedicle Screw Fixation: Two-Year Results from a Randomized Controlled Trial

Purpose We prospectively assessed the early radiographic and clinical outcomes (minimum follow-up of 2 years) of robot-assisted pedicle screw fixation (Robot-PSF) and conventional freehand pedicle screw fixation (Conv-PSF). Materials and Methods Patients were randomly assigned to Robot-PSF (37 patients) or Conv-PSF (41 patients) for posterior interbody fusion surgery. The Robot-PSF group underwent minimally invasive pedicle screw fixation using a pre-planned robot-guided screw trajectory. The Conv-PSF underwent screw fixation using the freehand technique. Radiographic adjacent segment degeneration (ASD) was measured on plain radiographs, and clinical outcomes were measured using visual analogue scale (VAS) and Oswestry disability index (ODI) scores regularly after surgery. Results The two groups had similar values for radiographic ASD, including University California at Los Angeles grade, vertebral translation, angular motion, and loss of disc height (p=0.320). At final follow-up, both groups had experienced significant improvements in back VAS, leg VAS, and ODI scores after surgery (p<0.001), although inter-group differences were not significant for back VAS (p=0.876), leg VAS (p=0.429), and ODI scores (p=0.952). In the Conv-PSF group, revision surgery was required for two of the 25 patients (8%), compared to no patients in the Robot-PSF group. Conclusion There were no significant differences in radiographic ASD and clinical outcomes between Robot-PSF and Conv-PSF. Thus, the advantages of robot-assisted surgery (accurate pedicle screw insertion and minimal facet joint violation) do not appear to be clinically significant.
High dietary fat and sucrose result in an extensive and time-dependent deterioration in health of multiple physiological systems in mice

Obesity is associated with metabolic dysfunction, including insulin resistance and hyperinsulinemia, and with disorders such as cardiovascular disease, osteoporosis, and neurodegeneration. Typically, these pathologies are examined in discrete model systems and with limited temporal resolution, and whether these disorders co-occur is therefore unclear. To address this question, here we examined multiple physiological systems in male C57BL/6J mice following prolonged exposure to a high-fat/high-sucrose diet (HFHSD). HFHSD-fed mice rapidly exhibited metabolic alterations, including obesity, hyperleptinemia, physical inactivity, glucose intolerance, peripheral insulin resistance, fasting hyperglycemia, ectopic lipid deposition, and bone deterioration. Prolonged exposure to HFHSD resulted in morbid obesity, ectopic triglyceride deposition in liver and muscle, extensive bone loss, sarcopenia, hyperinsulinemia, and impaired short-term memory. Although many of these defects are typically associated with aging, HFHSD did not alter telomere length in white blood cells, indicating that this diet did not generally promote all aspects of aging. Strikingly, glucose homeostasis was highly dynamic. Glucose intolerance was evident in HFHSD-fed mice after 1 week and was maintained for 24 weeks. Beyond 24 weeks, however, glucose tolerance improved in HFHSD-fed mice, and by 60 weeks, it was indistinguishable from that of chow-fed mice. This improvement coincided with adaptive β-cell hyperplasia and hyperinsulinemia, without changes in insulin sensitivity in muscle or adipose tissue. Assessment of insulin secretion in isolated islets revealed that leptin, which inhibited insulin secretion in the chow-fed mice, potentiated glucose-stimulated insulin secretion in the HFHSD-fed mice after 60 weeks. Overall, the excessive calorie intake was accompanied by deteriorating function of numerous physiological systems.
On the Empirical Effect of Gaussian Noise in Under-sampled MRI Reconstruction

In Fourier-based medical imaging, sampling below the Nyquist rate results in an underdetermined system, in which linear reconstructions will exhibit artifacts. Another consequence of under-sampling is lower signal to noise ratio (SNR) due to fewer acquired measurements. Even if an oracle provided the information to perfectly disambiguate the underdetermined system, the reconstructed image could still have lower image quality than a corresponding fully sampled acquisition because of the reduced measurement time. The effects of lower SNR and the underdetermined system are coupled during reconstruction, making it difficult to isolate the impact of lower SNR on image quality. To this end, we present an image quality prediction process that reconstructs fully sampled, fully determined data with noise added to simulate the loss of SNR induced by a given under-sampling pattern. The resulting prediction image empirically shows the effect of noise in under-sampled image reconstruction without any effect from an underdetermined system. We discuss how our image quality prediction process can simulate the distribution of noise for a given under-sampling pattern, including variable density sampling that produces colored noise in the measurement data. An interesting consequence of our prediction model is that we can show that recovery from underdetermined non-uniform sampling is equivalent to a weighted least squares optimization that accounts for heterogeneous noise levels across measurements. Through a series of experiments with synthetic and in vivo datasets, we demonstrate the efficacy of the image quality prediction process and show that it provides a better estimation of reconstruction image quality than the corresponding fully-sampled reference image.
A Key Management Scheme for Secure Communications of Information Centric Advanced Metering Infrastructure in Smart Grid

Advanced metering infrastructure (AMI), as the totality of systems and networks to measure, collect, store, analyze, and use energy usage data, is supposed to be the core component in smart grid. In AMI, there are numerous challenges among which cyber security is a major one that needs to be addressed with priority. The information centric networking (ICN) is a promising architecture for the future Internet that disseminates content based on named data instead of named hosts. The congestion control and self-security can enable more scalable, secure, collaborative, and pervasive networking, these make the ICN a potential network architecture for smart grid. This paper aims to apply the ICN approach on AMI system, which we termed as information centric AMI (ICN-AMI). To the best of our knowledge, this is the first attempt to distribute contents (or requests for contents) based on ICN in AMI system. Moreover, a simulation-based performance evaluation is employed to evaluate the effectiveness of the proposed ICN-AMI approach in traffic control for developing AMI system in smart grid. In addition, we proposed a novel key management scheme (KMS) for a large number of smart meters in this system to ensure confidentiality, integrality, and authentication. To validate the scheme, the security analysis, comparisons are done to demonstrate that the proposed information centric KMS (ICN-KMS) is possible and a promising solution for ICN-AMI system.
FAM210A is a novel determinant of bone and muscle structure and strength

Significance Osteoporosis and sarcopenia are common and costly comorbid diseases of aging, and there is an urgent need to prevent and treat both to reduce morbidity and mortality. We found that, in humans, genetic variation near FAM210A, a gene of previously unknown function, was strongly associated with both appendicular and whole body lean mass, as well as bone mineral density. In mice, Fam210a was expressed in muscle mitochondria and cytoplasm but not in bone. Nevertheless, in genetically modified mouse models, Fam210a strongly influenced the structure and strength of both muscle and bone. These studies therefore disclose a novel pathway whose further study may lead to the development of new treatments for both osteoporosis and sarcopenia. Osteoporosis and sarcopenia are common comorbid diseases, yet their shared mechanisms are largely unknown. We found that genetic variation near FAM210A was associated, through large genome-wide association studies, with fracture, bone mineral density (BMD), and appendicular and whole body lean mass, in humans. In mice, Fam210a was expressed in muscle mitochondria and cytoplasm, as well as in heart and brain, but not in bone. Grip strength and limb lean mass were reduced in tamoxifen-inducible Fam210a homozygous global knockout mice (TFam210a−/−), and in tamoxifen-inducible Fam210 skeletal muscle cell-specific knockout mice (TFam210aMus−/−). Decreased BMD, bone biomechanical strength, and bone formation, and elevated osteoclast activity with microarchitectural deterioration of trabecular and cortical bones, were observed in TFam210a−/− mice. BMD of male TFam210aMus−/− mice was also reduced, and osteoclast numbers and surface in TFam210aMus−/− mice increased. Microarray analysis of muscle cells from TFam210aMus−/− mice identified candidate musculoskeletal modulators. FAM210A, a novel gene, therefore has a crucial role in regulating bone structure and function, and may impact osteoporosis through a biological pathway involving muscle as well as through other mechanisms.
Further expansion of the alien seaweed Caulerpa taxifolia var. distichophylla (Sonder) Verlaque, Huisman & Procacini (Ulvophyceae, Bryopsidales) in the Eastern Mediterranean Sea

Caulerpa taxifolia var. distichophylla (Sonder) Verlaque, Huisman and Procacini is a green alga of Australian origin recently reported as an alien species in the Mediterranean Sea, where it is known from SE Turkey, Sicily, Cyprus and Malta. In the current study we present additional records of this taxon, expanding its known distribution into the Eastern Mediterranean Sea, and provide additional records from Cyprus and the first records from Rhodes Island (Greece). Our specimens were identified through a combination of morphological and molecular methods involving sequencing of ITS and tufA. Locally, C. taxifolia var. distichophylla occurred in high abundances and dominated the benthic community, suggesting that has the potential to become a major pest in the Mediterranean. It was also observed over a very wide depth range, from the sea surface to at least 100 m depth, on a variety of natural soft and hard substrates as well as abandoned fishing nets, suggesting a broad environmental plasticity. One of the findings reported here constitutes the deepest record of an alien Caulerpa in the Mediterranean Sea, even though it remains to be demonstrated that it actually grows at this site and depth rather than being merely a drift specimen.
Effects of online synchronous instruction with an attention monitoring and alarm mechanism on sustained attention and learning performance

ABSTRACT Many studies have shown that learners’ sustained attention strongly affects e-learning performance, particularly during online synchronous instruction. This work thus develops a novel attention monitoring and alarm mechanism (AMAM) based on brainwave signals to improve learning performance via monitoring the attention state of individual learners and helping online instructors or teaching assistants to improve the sustained attention levels of learners with low-attention states as they perform online synchronous instruction activities. Totally, 83 and 65 Grade 7 students were randomly assigned to the experimental and control groups that respectively underwent online synchronous instruction with and without AMAM support. Analytical results reveal that the experimental group of learners exhibited significantly better learning performance and sustained attention than those in the control group, verifying that the AMAM efficiently promotes the learning performance and sustained attention of learners. Moreover, the proposed AMAM was more helpful in improving the learning performance of female learners than those of male learners and improved the sustained attention of both male and female learners. Furthermore, the sustained attention, frequency of attention alarms, and learning performance of the learners in the experimental group were strongly correlated, and the sustained attention and frequency of attention alarms strongly predicted learning performance.
Fire and grazing in a mesic tallgrass prairie: impacts on plant species and functional traits.

Fire is a globally distributed disturbance that impacts terrestrial ecosystems and has been proposed to be a global "herbivore. " Fire, like herbivory, is a top-down driver that converts organic materials into inorganic products, alters community structure, and acts as an evolutionary agent. Though grazing and fire may have some comparable effects in grasslands, they do not have similar impacts on species composition and community structure. However, the concept of fire as a global herbivore implies that fire and herbivory may have similar effects on plant functional traits. Using 22 years of data from a mesic, native tallgrass prairie with a long evolutionary history of fire and grazing, we tested if trait composition between grazed and burned grassland communities would converge, and if the degree of convergence depended on fire frequency. Additionally, we tested if eliminating fire from frequently burned grasslands would result in a state similar to unburned grasslands, and if adding fire into a previously unburned grassland would cause composition to become more similar to that of frequently burned grasslands. We found that grazing and burning once every four years showed the most convergence in traits, suggesting that these communities operate under similar deterministic assembly rules and that fire and herbivory are similar disturbances to grasslands at the trait-group level of organization. Three years after reversal of the fire treatment we found that fire reversal had different effects depending on treatment. The formerly unburned community that was then burned annually became more similar to the annually burned community in trait composition suggesting that function may be rapidly restored if fire is reintroduced. Conversely, after fire was removed from the annually burned community trait composition developed along a unique trajectory indicating hysteresis, or a time lag for structure and function to return following a change in this disturbance regime. We conclude that functional traits and species-based metrics should be considered when determining and evaluating goals for fire management in mesic grassland ecosystems.
Transcriptional Regulation of Carnitine Catabolism in Pseudomonas aeruginosa by CdhR

Pathogens must metabolize host-derived compounds during infection and properly regulate the responsible pathways. Carnitine is a common eukaryotic-associated quaternary amine compound that can be catabolized by Pseudomonas aeruginosa. Here we expand on our understanding of how this metabolic pathway is regulated and provide details on how carnitine catabolism is intertwined with glycine betaine catabolism at the level of transcriptional control. ABSTRACT The common environmental bacterium and opportunistic pathogen Pseudomonas aeruginosa encodes diverse metabolic pathways and associated regulatory networks allowing it to thrive in these different environments. In an effort to understand P. aeruginosa metabolism and detection of host-derived compounds, we previously identified CdhR and GbdR as members of the AraC transcription factor family that regulate catabolism of the quaternary amine compounds carnitine and glycine betaine, respectively. In this study, our goal was to further characterize regulation of carnitine catabolism by the transcription factor CdhR. CdhR binds in a concentration-dependent manner upstream of the carnitine catabolism operon promoter (PcaiXcdhCABhocS). We identified the CdhR binding site and determined that it overlaps with the GbdR binding site in the caiX-cdhR intergenic region. Carnitine catabolism is repressed by glucose and glycine betaine, and here we show this happens at the transcriptional level. Furthermore, we show that CdhR enhances its own expression and that GbdR contributes to cdhR expression by enhancing the level of basal expression. The intertwined regulation of caiX and cdhR transcription by GbdR and CdhR suggests that carnitine catabolism is under tight but tuneable control. IMPORTANCE Pathogens must metabolize host-derived compounds during infection and properly regulate the responsible pathways. Carnitine is a common eukaryotic-associated quaternary amine compound that can be catabolized by Pseudomonas aeruginosa. Here we expand on our understanding of how this metabolic pathway is regulated and provide details on how carnitine catabolism is intertwined with glycine betaine catabolism at the level of transcriptional control.
Volume Quantification of Acute Infratentorial Hemorrhage with Computed Tomography: Validation of the Formula 1/2ABC and 2/3SH

Objective To compare the accuracy of formula 1/2ABC with 2/3SH on volume estimation for hypertensive infratentorial hematoma. Methods One hundred and forty-seven CT scans diagnosed as hypertensive infratentorial hemorrhage were reviewed. Based on the shape, hematomas were categorized as regular or irregular. Multilobular was defined as a special shape of irregular. Hematoma volume was calculated employing computer-assisted volumetric analysis (CAVA), 1/2ABC and 2/3SH, respectively. Results The correlation coefficients between 1/2ABC (or 2/3SH) and CAVA were greater than 0.900 in all subgroups. There were neither significant differences in absolute values of volume deviation nor percentage deviation between 1/2ABC and 2/3SH for regular hemorrhage (P>0.05). While for cerebellar, brainstem and irregular hemorrhages, the absolute values of volume deviation and percentage deviation by formula 1/2ABC were greater than 2/3SH (P<0.05). 1/2ABC and 2/3SH underestimated hematoma volume each by 10% and 5% for cerebellar hemorrhage, 14% and 9% for brainstem hemorrhage, 19% and 16% for regular hemorrhage, 9% and 3% for irregular hemorrhage, respectively. In addition, for the multilobular hemorrhage, 1/2ABC underestimated the volume by 9% while 2/3SH overestimated it by 2%. Conclusions For regular hemorrhage volume calculation, the accuracy of 2/3SH is similar to 1/2ABC. While for cerebellar, brainstem or irregular hemorrhages (including multilobular), 2/3SH is more accurate than 1/2ABC.
Gap-metric-based robustness analysis of nonlinear systems with full and partial feedback linearisation

ABSTRACT This paper uses gap metric analysis to derive robustness and performance margins for feedback linearising controllers. Distinct from previous robustness analysis, it incorporates the case of output unstructured uncertainties, and is shown to yield general stability conditions which can be applied to both stable and unstable plants. It then expands on existing feedback linearising control schemes by introducing a more general robust feedback linearising control design which classifies the system nonlinearity into stable and unstable components and cancels only the unstable plant nonlinearities. This is done in order to preserve the stabilising action of the inherently stabilising nonlinearities. Robustness and performance margins are derived for this control scheme, and are expressed in terms of bounds on the plant nonlinearities and the accuracy of the cancellation of the unstable plant nonlinearity by the controller. Case studies then confirm reduced conservatism compared with standard methods.
A Novel Method for Drug Screen to Regulate G Protein-Coupled Receptors in the Metabolic Network of Alzheimer's Disease

Alzheimer's disease (AD) is a chronic and progressive neurodegenerative disorder and the pathogenesis of AD is poorly understood. G protein-coupled receptors (GPCRs) are involved in numerous key AD pathways and play a key role in the pathology of AD. To fully understand the pathogenesis of AD and design novel drug therapeutics, analyzing the connection between AD and GPCRs is of great importance. In this paper, we firstly build and analyze the AD-related pathway by consulting the KEGG pathway of AD and a mass of literature and collect 25 AD-related GPCRs for drug discovery. Then the ILbind and AutoDock Vina tools are integrated to find out potential drugs related to AD. According to the analysis of DUD-E dataset, we select five drugs, that is, Acarbose (ACR), Carvedilol (CVD), Digoxin (DGX), NADH (NAI), and Telmisartan (TLS), by sorting the ILbind scores (≥0.73). Then depending on their AutoDock Vina scores and pocket position information, the binding patterns of these five drugs are obtained. We analyze the regulation function of GPCRs in the metabolic network of AD based on the drug screen results, which may be helpful for the study of the off-target effect and the side effect of drugs.