Miracle-dz/UniFAR-FTUs huggingface dataset:
Virtual multiprocessor: an analyzable, high-performance architecture for real-time computing

The design of a real-time architecture is governed by a trade-off between analyzability necessary for real-time formalism and performance demanded by high-end embedded systems. We reconcile this trade-off with a novel Real-time Virtual Multiprocessor (RVMP). RVMP virtualizes a single in-order superscalar processor into multiple interference-free different-sized virtual processors. This provides a flexible spatial dimension. In the time dimension, the number and size of virtual processors can be rapidly reconfigured. A simple real-time scheduling approach concentrates scheduling within a small time interval, producing a simple repeating space/time schedule that orchestrates virtualization. RVMP successfully combines the analyzability (hence real-time formalism) of multiple processors with the flexibility (hence high performance) of simultaneous multithreading (SMT). Worst-case schedulability experiments show that more task-sets are provably schedulable on RVMP than on conventional rigid multiprocessors with equal aggregate resources, and the advantage only intensifies with more demanding task-sets. Run-time experiments show RVMP's statically-controlled coarser-grain space/time configurability is as effective as unsafe SMT. Moreover, RVMP provides a real-time formalism that SMT does not currently provide.
Development of the external genitalia: Conserved and divergent mechanisms of appendage patterning

Over the past decade, the genetics of external genital development have begun to be understood. Male and female external genitalia develop from the genital tubercle. The early tubercle has a superficial resemblance to the limb bud, but an important distinction is that the limb consists of only mesoderm and ectoderm, whereas the genital tubercle also has an endodermal component, the urethral epithelium. Urethral epithelium, which expresses Sonic hedgehog, acts as a signaling region that controls outgrowth and pattern formation, and ultimately differentiates into the urethral tube. While there are intriguing parallels between limb and genital development, recent studies have identified some key differences, including the role of Fgf signaling. Our understanding of the mechanisms of genital development still lags far behind the limb, and major questions remain to be answered, including the molecular nature of the signals that initiate genital budding, sustain outgrowth, induce tissue polarity and orchestrate urethral tubulogenesis. Developmental Dynamics 240:1108–1115, 2011. © 2011 Wiley‐Liss, Inc.
Nitrite augments tolerance to ischemia/reperfusion injury via the modulation of mitochondrial electron transfer

Nitrite (NO2 −) is an intrinsic signaling molecule that is reduced to NO during ischemia and limits apoptosis and cytotoxicity at reperfusion in the mammalian heart, liver, and brain. Although the mechanism of nitrite-mediated cytoprotection is unknown, NO is a mediator of the ischemic preconditioning cell-survival program. Analogous to the temporally distinct acute and delayed ischemic preconditioning cytoprotective phenotypes, we report that both acute and delayed (24 h before ischemia) exposure to physiological concentrations of nitrite, given both systemically or orally, potently limits cardiac and hepatic reperfusion injury. This cytoprotection is associated with increases in mitochondrial oxidative phosphorylation. Remarkably, isolated mitochondria subjected to 30 min of anoxia followed by reoxygenation were directly protected by nitrite administered both in vitro during anoxia or in vivo 24 h before mitochondrial isolation. Mechanistically, nitrite dose-dependently modifies and inhibits complex I by posttranslational S-nitrosation; this dampens electron transfer and effectively reduces reperfusion reactive oxygen species generation and ameliorates oxidative inactivation of complexes II–IV and aconitase, thus preventing mitochondrial permeability transition pore opening and cytochrome c release. These data suggest that nitrite dynamically modulates mitochondrial resilience to reperfusion injury and may represent an effector of the cell-survival program of ischemic preconditioning and the Mediterranean diet.
In Vitro Antifungal Activities of the New Triazole UR-9825 against Clinically Important Filamentous Fungi

ABSTRACT We used a modified reference microdilution method (the M-38P method) to evaluate the in vitro activities of the new triazole UR-9825 in comparison with those of amphotericin B against 77 strains of opportunistic filamentous fungi. UR-9825 was clearly more active than amphotericin B against all fungi except Fusarium solaniand Scytalidium spp. Notably, UR-9825 had low MICs forAspergillus fumigatus and Paecilomyces lilacinus (MICs at which 90% of isolates are inhibited, 0.125 μg/ml for both species).
Lower diffusing capacity with chronic bronchitis predicts higher risk of acute exacerbation in chronic obstructive lung disease.

BACKGROUND This study was designed to evaluate the effect of chronic bronchitis (CB) symptoms and degree of emphysema in a multicenter Korean cohort. METHODS From April 2012 to May 2015, patients diagnosed with chronic obstructive lung disease (COPD) who were aged above 40 years at 46 hospitals throughout Korea were enrolled. All of the patients were classified according to CB symptoms and the diffusing capacity of the lung for carbon monoxide (DLCO); demographic data, symptom scores, and the result of lung function tests and exacerbations were then analyzed. RESULTS A total of 812 patients were enrolled. Among these patients, 285 (35.1%) had CB symptoms. A total of 51% of patients had high DLCO without CB symptoms [CB (-) high DLCO], 24.9% had CB symptoms only [CB (+) high DLCO], 14.2% had low DLCO only [CB (-) low DLCO], and 10.2% had both low DLCO and CB [CB (+) low DLCO]. Patients with CB (+) low DLCO showed a significantly lower post-bronchodilator (BD) forced expiratory volume for 1 second (FEV1) and more severe dyspnea than patients with CB (-) high DLCO. On multivariate analysis, the risk of acute exacerbation was two times higher [odds ratio (OR) 2.06; 95% confidence interval (CI): 1.18-3.62; P=0.01] in the CB (+) low DLCO group than in the CB (-) high DLCO group. CONCLUSIONS In this COPD cohort, patients showed distinct clinical characteristics and outcomes according to the presence of CB and degree of DLCO. CB and low DLCO were associated with the risk of acute exacerbation.
Additive Energy and the Falconer Distance Problem in Finite Fields

We study the number of the vectors determined by two sets in d-dimensional vector spaces over finite fields. We observe that the lower bound of cardinality for the set of vectors can be given in view of an additive energy or the decay of the Fourier transform on given sets. As an application of our observation, we find sufficient conditions on sets where the Falconer distance conjecture for finite fields holds in two dimension. Moreover, we give an alternative proof of the theorem, due to Iosevich and Rudnev, that any Salem set satisfies the Falconer distance conjecture for finite fields.
Oropouche Virus Infection and Pathogenesis Are Restricted by MAVS, IRF-3, IRF-7, and Type I Interferon Signaling Pathways in Nonmyeloid Cells

ABSTRACT Oropouche virus (OROV) is a member of the Orthobunyavirus genus in the Bunyaviridae family and a prominent cause of insect-transmitted viral disease in Central and South America. Despite its clinical relevance, little is known about OROV pathogenesis. To define the host defense pathways that control OROV infection and disease, we evaluated OROV pathogenesis and immune responses in primary cells and mice that were deficient in the RIG-I-like receptor signaling pathway (MDA5, RIG-I, or MAVS), downstream regulatory transcription factors (IRF-3 or IRF-7), beta interferon (IFN-β), or the receptor for type I IFN signaling (IFNAR). OROV replicated to higher levels in primary fibroblasts and dendritic cells lacking MAVS signaling, the transcription factors IRF-3 and IRF-7, or IFNAR than in wild-type (WT) cells. In mice, deletion of IFNAR, MAVS, or IRF-3 and IRF-7 resulted in uncontrolled OROV replication, hypercytokinemia, extensive liver damage, and death, whereas WT congenic animals failed to develop disease. Unexpectedly, mice with a selective deletion of IFNAR on myeloid cells (CD11c Cre+ Ifnar f/f or LysM Cre+ Ifnar f/f) did not sustain enhanced disease with OROV or a selective (flox/flox) deletion La Crosse virus, a closely related encephalitic orthobunyavirus. In bone marrow chimera studies, recipient irradiated Ifnar −/− mice reconstituted with WT hematopoietic cells sustained high levels of OROV replication and liver damage, whereas WT mice reconstituted with Ifnar −/− bone marrow were resistant to disease. Collectively, these results establish a dominant protective role for MAVS, IRF-3 and IRF-7, and IFNAR in restricting OROV infection and tissue injury and suggest that IFN signaling in nonmyeloid cells contributes to the host defense against orthobunyaviruses. IMPORTANCE Oropouche virus (OROV) is an emerging arthropod-transmitted orthobunyavirus that causes episodic outbreaks of a debilitating febrile illness in humans in countries of South and Central America. The continued expansion of the range and number of its arthropod vectors increases the likelihood that OROV will spread into new regions. At present, the pathogenesis of OROV in humans or other vertebrate animals remains poorly understood. To define cellular mechanisms of control of OROV infection, we performed infection studies in a series of primary cells and mice that were deficient in key innate immune genes involved in pathogen recognition and control. Our results establish that a MAVS-dependent type I IFN signaling pathway has a dominant role in restricting OROV infection and pathogenesis in vivo.
Controls on bacterial and archaeal community structure and greenhouse gas production in natural, mined, and restored Canadian peatlands

Northern peatlands are important global C reservoirs, largely because of their slow rates of microbial C mineralization. Particularly in sites that are heavily influenced by anthropogenic disturbances, there is scant information about microbial ecology and whether or not microbial community structure influences greenhouse gas production. This work characterized communities of bacteria and archaea using terminal restriction fragment length polymorphism (T-RFLP) and sequence analysis of 16S rRNA and functional genes across eight natural, mined, or restored peatlands in two locations in eastern Canada. Correlations were explored among chemical properties of peat, bacterial and archaeal community structure, and carbon dioxide (CO2) and methane (CH4) production rates under oxic and anoxic conditions. Bacteria and archaea similar to those found in other peat soil environments were detected. In contrast to other reports, methanogen diversity was low in our study, with only 2 groups of known or suspected methanogens. Although mining and restoration affected substrate availability and microbial activity, these land-uses did not consistently affect bacterial or archaeal community composition. In fact, larger differences were observed between the two locations and between oxic and anoxic peat samples than between natural, mined, and restored sites, with anoxic samples characterized by less detectable bacterial diversity and stronger dominance by members of the phylum Acidobacteria. There were also no apparent strong linkages between prokaryote community structure and CH4 or CO2 production, suggesting that different organisms exhibit functional redundancy and/or that the same taxa function at very different rates when exposed to different peat substrates. In contrast to other earlier work focusing on fungal communities across similar mined and restored peatlands, bacterial and archaeal communities appeared to be more resistant or resilient to peat substrate changes brought about by these land uses.
Constructing Biological Knowledge Bases by Extracting Information from Text Sources

Recently, there has been much effort in making databases for molecular biology more accessible and interoperable. However, information in text form, such as MEDLINE records, remains a greatly underutilized source of biological information. We have begun a research effort aimed at automatically mapping information from text sources into structured representations, such as knowledge bases. Our approach to this task is to use machine-learning methods to induce routines for extracting facts from text. We describe two learning methods that we have applied to this task--a statistical text classification method, and a relational learning method--and our initial experiments in learning such information-extraction routines. We also present an approach to decreasing the cost of learning information-extraction routines by learning from "weakly" labeled training data.
Isolation and Characterization of Novel Murine Epiphysis Derived Mesenchymal Stem Cells

Background While bone marrow (BM) is a rich source of mesenchymal stem cells (MSCs), previous studies have shown that MSCs derived from mouse BM (BMMSCs) were difficult to manipulate as compared to MSCs derived from other species. The objective of this study was to find an alternative murine MSCs source that could provide sufficient MSCs. Methodology/Principal Findings In this study, we described a novel type of MSCs that migrates directly from the mouse epiphysis in culture. Epiphysis-derived MSCs (EMSCs) could be extensively expanded in plastic adherent culture, and they had a greater ability for clonogenic formation and cell proliferation than BMMSCs. Under specific induction conditions, EMSCs demonstrated multipotency through their ability to differentiate into adipocytes, osteocytes and chondrocytes. Immunophenotypic analysis demonstrated that EMSCs were positive for CD29, CD44, CD73, CD105, CD166, Sca-1 and SSEA-4, while negative for CD11b, CD31, CD34 and CD45. Notably, EMSCs did not express major histocompatibility complex class I (MHC I) or MHC II under our culture system. EMSCs also successfully suppressed the proliferation of splenocytes triggered by concanavalin A (Con A) or allogeneic splenocytes, and decreased the expression of IL-1, IL-6 and TNF-α in Con A-stimulated splenocytes suggesting their anti-inflammatory properties. Moreover, EMSCs enhanced fracture repair, ameliorated necrosis in ischemic skin flap, and improved blood perfusion in hindlimb ischemia in the in vivo experiments. Conclusions/Significances These results indicate that EMSCs, a new type of MSCs established by our simple isolation method, are a preferable alternative for mice MSCs due to their better growth and differentiation potentialities.
Clinical Significance of Microbleeds in Subcortical Vascular Dementia

Background and Purpose— Despite many studies investigating the association between the ischemic changes and cognitive impairment in subcortical vascular dementia (SVaD), few studies correlated cognitive impairment with microbleeds (MBs) frequently seen in SVaD. Methods— Participants consisted of 86 patients with SVaD who fulfilled the criteria proposed by Erkinjuntti et al. Results— MBs occurred in 73 of 86 (84.9%) patients with SVaD. MBs were most commonly distributed in the cortex, and the cortical MBs were most pronounced in the temporoparietal area. A multiple regression showed that the number of cerebral MB was an independent predictor of cognitive impairment in multiple domains and the severity of dementia even after controlling confounding factors such as age, education, ischemic severity, and number of lacunes. Conclusion— These results indicate that cerebral MB is one of the important factors that cause cognitive impairments in SVaD.
Core-Lexicon and Main-Concept Production During Picture-Sequence Description in Adults Without Brain Damage and Adults With Aphasia.

PURPOSE We sought to identify the core lexicon of a picture-description task using transcripts from the AphasiaBank database and to determine differences in core-lexicon usage between control speakers and persons with aphasia (PWAs). We also investigated the relationship between core lexicon and an established discourse measure, main-concept analysis. METHOD A core lexicon was developed by identifying lemmas produced by 92 control speakers. Transcripts were scored-165 control transcripts and 238 PWA transcripts-using the core lexicon and a recently developed main-concept list. Median tests examined differences between controls, PWAs, and aphasia subtypes. Spearman's correlations assessed the relationship between core-lexicon and main-concept performance. RESULTS A 24-item core lexicon was identified. Significant differences were found between control speakers and PWAs, and between aphasia subtypes, for core-lexicon and main-concept scores. Core-lexicon and main-concept performance was significantly and positively correlated for all groups. CONCLUSIONS We report the development of a core lexicon, differences in core-lexicon usage between speakers, and the relationship between core-lexicon and main-concept scores. Research is needed to determine the clinical utility and psychometric properties of these discourse measures and their potential contribution to multilevel discourse analysis of functional communication.
On the Functoriality of the Slice Filtration

Let $k$ be a field with resolution of singularities, and $X$ a separated $k$-scheme of finite type with structure map $g$. We show that the slice filtration in the motivic stable homotopy category commutes with pullback along $g$. Restricting the field further to the case of characteristic zero, we are able to compute the slices of Weibel's homotopy invariant $K$-theory extending the result of Levine, and also the zero slice of the sphere spectrum extending the result of Levine and Voevodsky. We also show that the zero slice of the sphere spectrum is a strict cofibrant ring spectrum $\mathbf{HZ}_{X}^{\slicefilt}$ which is stable under pullback and that all the slices have a canonical structure of strict modules over $\mathbf{HZ}_{X}^{\slicefilt}$. If we consider rational coefficents and assume that $X$ is geometrically unibranch then relying on the work of Cisinski and D{\'e}glise, we get that the zero slice of the sphere spectrum is given by Voevodsky's rational motivic cohomology spectrum $\mathbf{HZ}_{X}\otimes \mathbb Q$ and that the slices have transfers. This proves several conjectures of Voevodsky.
Adaptive operator selection with dynamic multi-armed bandits

An important step toward self-tuning Evolutionary Algorithms is to design efficient Adaptive Operator Selection procedures. Such a procedure is made of two main components: a credit assignment mechanism, that computes a reward for each operator at hand based on some characteristics of the past offspring; and an adaptation rule, that modifies the selection mechanism based on the rewards of the different operators. This paper is concerned with the latter, and proposes a new approach for it based on the well-known Multi-Armed Bandit paradigm. However, because the basic Multi-Armed Bandit methods have been developed for static frameworks, a specific Dynamic Multi-Armed Bandit algorithm is proposed, that hybridizes an optimal Multi-Armed Bandit algorithm with the statistical Page-Hinkley test, which enforces the efficient detection of changes in time series. This original Operator Selection procedure is then compared to the state-of-the-art rules known as Probability Matching and Adaptive Pursuit on several artificial scenarios, after a careful sensitivity analysis of all methods. The Dynamic Multi-Armed Bandit method is found to outperform the other methods on a scenario from the literature, while on another scenario, the basic Multi-Armed Bandit performs best.
Hemodynamic response to muscle reflex is abnormal in patients with heart failure with preserved ejection fraction.

The aim of the present investigation was to assess the role of cardiac diastole on the hemodynamic response to metaboreflex activation. We wanted to determine whether patients with diastolic function impairment showed a different hemodynamic response compared with normal subjects during this reflex. Hemodynamics during activation of the metaboreflex obtained by postexercise muscle ischemia (PEMI) was assessed in 10 patients with diagnosed heart failure with preserved ejection fraction (HFpEF) and in 12 age-matched healthy controls (CTL). Subjects also performed a control exercise-recovery test to compare data from the PEMI test. The main results were that patients with HFpEF achieved a similar mean arterial blood pressure (MAP) response as the CTL group during the PEMI test. However, the mechanism by which this response was achieved was markedly different between the two groups. Patients with HFpEF achieved the target MAP via an increase in systemic vascular resistance (+389.5 ± 402.9 vs. +80 ± 201.9 dynes·s-1·cm-5 for HFpEF and CTL groups respectively), whereas MAP response in the CTL group was the result of an increase in cardiac preload (-1.3 ± 5.2 vs. 6.1 ± 10 ml in end-diastolic volume for HFpEF and CTL groups, respectively), which led to a rise in stroke volume and cardiac output. Moreover, early filling peak velocities showed a higher response in the CTL group than in the HFpEF group. This study demonstrates that diastolic function is important for normal hemodynamic adjustment to the metaboreflex. Moreover, it provides evidence that HFpEF causes hemodynamic impairment similar to that observed in systolic heart failure.NEW & NOTEWORTHY This study provides evidence that diastolic function is important for normal hemodynamic responses during the activation of the muscle metaboreflex in humans. Moreover, it demonstrates that diastolic impairment leads to hemodynamic consequences similar to those provoked by systolic heart failure. In both cases the target blood pressure is obtained mainly by means of exaggerated vasoconstriction than by a flow-mediated mechanism.
The Very Slow Wind from the Pulsating Semiregular Red Giant, L2 Puppis

We have obtained 11.7 and 17.9 μm images at the Keck I telescope of the circumstellar dust emission from L2 Pup, which is one of the nearest (D = 61 pc) mass-losing, pulsating red giants that has a substantial infrared excess. We propose that the star is losing mass at a rate of ~3 × 10-7 M☉ yr-1. Given its relatively low luminosity (~1500 L☉), relatively high effective temperature (near 3400 K), relatively short period (~140 days), and inferred gas outflow speed of 3.5 km s-1, standard models for dust-driven mass loss do not apply. Instead, the wind may be driven by the stellar pulsations, with radiation pressure on dust being relatively unimportant, as described in some recent calculations. L2 Pup may serve as the prototype of this phase of stellar evolution, in which a star could lose ~15% of its initial main-sequence mass.