Miracle-dz/UniFAR-FTUs huggingface dataset:
X-RAY SPECTRA FROM MAGNETOHYDRODYNAMIC SIMULATIONS OF ACCRETING BLACK HOLES

We present the results of a new global radiation transport code coupled to a general relativistic magnetohydrodynamic simulation of an accreting, non-rotating black hole. For the first time, we are able to explain from first principles in a self-consistent way all the components seen in the X-ray spectra of stellar-mass black holes, including a thermal peak and all the features associated with strong hard X-ray emission: a power law extending to high energies, a Compton reflection hump, and a broad iron line. Varying only the mass accretion rate, we are able to reproduce a wide range of X-ray states seen in most galactic black hole sources. The temperature in the corona is Te ∼ 10 keV in a boundary layer near the disk and rises smoothly to Te ≳ 100 keV in low-density regions far above the disk. Even as the disk's reflection edge varies from the horizon out to ≈6M as the accretion rate decreases, we find that the shape of the Fe Kα line is remarkably constant. This is because photons emitted from the plunging region are strongly beamed into the horizon and never reach the observer. We have also carried out a basic timing analysis of the spectra and find that the fractional variability increases with photon energy and viewer inclination angle, consistent with the coronal hot spot model for X-ray fluctuations.
Electrical Remodeling of the Atria in Congestive Heart Failure: Electrophysiological and Electroanatomic Mapping in Humans

Background—Atrial fibrillation (AF) frequently complicates congestive heart failure (CHF). However, the electrophysiological substrate for AF in humans with CHF remains unknown. We evaluated the electrophysiological and electroanatomic characteristics of the atria in patients with CHF. Methods and Results—Twenty-one patients (aged 53.7±13.6 years) with symptomatic CHF (left ventricular ejection fraction 25.5±6.0%) and 21 age-matched controls were studied. The following were evaluated: effective refractory periods (ERPs) from the high and low lateral right atrium (LRA), high septal right atrium, and distal coronary sinus (CS); conduction time along the CS and LRA; corrected sinus node recovery times; P-wave duration; and conduction at the crista terminalis. In a subset, electroanatomic mapping was performed to determine atrial activation, regional conduction velocity, double potentials, fractionated electrograms, regional voltage, and areas of electrical silence. Patients with CHF demonstrated an increase in atrial ERP with no change in the heterogeneity of refractoriness, an increase of atrial conduction time along the LRA and the CS, prolongation of the P-wave duration and corrected sinus node recovery times, and greater number and duration of double potentials along the crista terminalis. Electroanatomic mapping demonstrated regional conduction slowing with a greater number of electrograms with fractionation or double potentials, associated with areas of low voltage and electrical silence (scar). Patients with CHF demonstrated an increased propensity for AF with single extrastimuli, and induced AF was more often sustained. Conclusions—Atrial remodeling due to CHF is characterized by structural changes, abnormalities of conduction, sinus node dysfunction, and increased refractoriness. These abnormalities may be responsible in part for the increased propensity for AF in CHF.
A reversed framework for the identification of microRNA-target pairs in plants

Most plant microRNAs (miRNAs) perform their repressive regulation through target cleavages. The resulting slicing sites on the target transcripts could be mapped by sequencing of the 3'-cleavage remnants, called degradome sequencing. The high sequence complementarity between miRNAs and their targets has greatly facilitated the development of the target prediction tools for plant miRNAs. The prediction results were then subjected to degradome sequencing data-based validation, through which numerous miRNA-target interactions have been extracted. However, some drawbacks are unavoidable when using this forward approach. Essentially, a known list of plant miRNAs should be obtained in advance of target prediction and validation. This becomes an obstacle to discover novel miRNAs and their targets. Here, after reviewing the current available algorithms for reverse identification of miRNA-target pairs in plants, a case study was performed by using a newly established framework with adjustable parameters. In this workflow, integration of degradome and ARGONAUTE 1-enriched small RNA sequencing data was recommended to do a relatively comprehensive and reliable search. Besides, several computational algorithms such as BLAST, target plots and RNA secondary structure prediction were used. The results demonstrated the prevalent utility of the reversed approach for uncovering miRNA-target interactions in plants.
A Pilot Study Using Next-Generation Sequencing in Advanced Cancers: Feasibility and Challenges

Purpose New anticancer agents that target a single cell surface receptor, up-regulated or amplified gene product, or mutated gene, have met with some success in treating advanced cancers. However, patients' tumors still eventually progress on these therapies. If it were possible to identify a larger number of targetable vulnerabilities in an individual's tumor, multiple targets could be exploited with the use of specific therapeutic agents, thus possibly giving the patient viable therapeutic alternatives. Experimental Design In this exploratory study, we used next-generation sequencing technologies (NGS) including whole genome sequencing (WGS), and where feasible, whole transcriptome sequencing (WTS) to identify genomic events and associated expression changes in advanced cancer patients. Results WGS on paired tumor and normal samples from nine advanced cancer patients and WTS on six of these patients' tumors was completed. One patient's treatment was based on targets and pathways identified by NGS and the patient had a short-lived PET/CT response with a significant reduction in his tumor-related pain. To design treatment plans based on information garnered from NGS, several challenges were encountered: NGS reporting delays, communication of results to out-of-state participants and their treating oncologists, and chain of custody handling for fresh biopsy samples for Clinical Laboratory Improvement Amendments (CLIA) target validation. Conclusion While the initial effort was a slower process than anticipated due to a variety of issues, we demonstrate the feasibility of using NGS in advanced cancer patients so that treatments for patients with progressing tumors may be improved.
BRAIN-DERIVED NEUROTROPHIC FACTOR IN HUMAN SALIVA: ELISA OPTIMIZATION AND BIOLOGICAL CORRELATES

In order to assess the physiological significance of human salivary brain-derived neurotrophic factor (BDNF), we have optimized a sensitive and specific enzyme-linked immunosorbent assay (ELISA). We determined the range of salivary BDNF concentrations, the impact of saliva collection method, and the association of salivary BDNF with several biological characteristics. The ELISA had a detection limit of 62.5 pg/mL, and intra-assay and interassay precisions of 4.2% and 8.2%, respectively. Salivary BDNF concentrations were highly variable between individuals (median = 618 pg/mL) and were affected by collection method. Women had significantly higher levels of salivary BDNF than men. There was no relationship, however, between salivary BDNF levels and the other biological characteristics examined.
The Effect of Short-Interval Laparoscopic Lysis of Adhesions on Pregnancy Rates Following Nd-YAG Laser Photocoagulation of Polycystic Ovaries

Laparoscopic Nd-YAG laser photocoagulation of the ovaries was performed in 40 anovulatory women with clomiphene citrate-resistant polycystic ovary disease. Following this procedure, the subjects were randomly assigned to have either a second-look laparoscopy with lysis of adhesions within 3-4 weeks of the initial laparoscopy (N=19) or expectant management (N=20). One patient assigned to the laparoscopy group refused the procedure. Minimal and mild adhesions that did not distort the normal tubo-ovarian relationship were encountered in 13 patients (68%) in the second-look laparoscopy group; these adhesions were easily lysed using sharp or blunt dissection. The pregnancy rates over 6 months were similar in the two groups (47% in the second-look group and 55% in the expectant-management group; P>.05). These data suggest that early laparoscopic lysis of adhesions does not improve short-term conception rates following laparoscopic Nd-YAG laser photocoagulation of polycystic ovaries.
Performance analysis of grid-connected PV system

The electricity power generated from photovoltaic (PV) array depends mainly on climate conditions. So, the PV solar grid connected inverters should equip with control system to meet fast response of solar irradiance change. This paper describes steady state performance of the PV grid-connected system at different solar irradiances. The proposed system model is built on MATLAB/Simulink, including the PV array with a modified perturb and observe (MP&O) tracker connected to DC-DC boost converter, the three-phase three level electronic power inverter that is connected to the utility grid (UG) through low pass filter and coupling transformer and synchronizing control system of PV inverter and UG. The proposed system is simulated under daily weather conditions to test its operating performance. The simulation results of the proposed system satisfy requirements grid performance with high power quality.
MAPKAP Kinase 2-Deficient Mice Are Resistant to Collagen-Induced Arthritis

TNF-α is a pleiotropic cytokine considered a primary mediator of immune regulation and inflammatory response and has been shown to play a central role in rheumatoid arthritis (RA). MAPKAP kinase 2 (MK2) is a serine/threonine kinase that is regulated through direct phosphorylation by p38 MAPK, and has been shown to be an essential component in the inflammatory response that regulates the biosynthesis of TNF-α at a posttranscriptional level. The murine model of collagen-induced arthritis (CIA) is an established disease model to study pathogenic mechanisms relevant to RA. In this study, we report that deletion of the MK2 gene in DBA/1LacJ mice confers protection against CIA. Interestingly, the MK2 heterozygous mutants display an intermediate level of protection when compared with homozygous mutant and wild-type littermates. We show that MK2−/− and MK2+/− mice exhibit decreased disease incidence and severity in the CIA disease model and reduced TNF-α and IL-6 serum levels following LPS/d-Gal treatment compared with wild-type mice. Additionally, we show that levels of IL-6 mRNA in paws of mice with CIA correlate with the disease status. These findings suggest that an MK2 inhibitor could be of great therapeutic value to treat inflammatory diseases like RA.
Antimicrobial activity of extracts of the lichens Cladonia furcata, Parmelia caperata, Parmelia pertusa, Hypogymnia physodes and Umbilicaria polyphylla

Antimicrobial features of acetone, methanol and aqueous extracts of lichens of Cladonia furcata, Parmelia caperata, Parmelia pertusa, Hypogymnia physodes and Umbilicaria polyphylla were investigated by two different methods at the same time. Testing of antimicrobial activities of extracts from five species of lichens was performed by disc diffusion test in relation to Gram-positive and Gram-negative bacteria and fungal organisms, and through determination of minimal inhibitory concentration (MIC) by Broth Tube Dilution method. The obtained results indicated that acetone and methanol extracts of all investigated lichens in different concentrations manifested selective antibacterial and antifungal activity. That activity was more evident in relation to Gram-positive, than Gram-negative bacteria and fungal organisms. Acetone and methanol extracts of lichens Parmelia pertusa, Hypogymnia physodes and Umbilicaria polyphylla inhibited the growth of all tested microorganisms, most of all of lichens Cladonia furcata and Parmelia caperata. Although, the methanol extracts were generally the most active against the test organisms, the lowest MIC value was measured for acetone extract of species Cladonia furcata 0.39 mg/mL in relation to bacterium Bacillus subtilis. Aqueous extracts of investigated lichens were inactive against all tested organisms.
Channel aware scheduling for user-individual QoS provisioning in wireless systems

We propose a novel scheduling approach for packet based wireless systems. Our approach is aiming at enabling user-individual QoS management, while exploiting channel fluctuations. We assume that each user is characterized by a set of QoS requirements as his/her flow is accepted into the system. We first introduce a generalized measure, the residual time, for the urgency of the next packet to send of each flow in the system. The residual time is derived from the transmission history and the current packet data queue of each flow, with respect to the flow specific QoS requirements. Based on this urgency measure, a scheduling approach is outlined, which makes it possible to tune the tradeoff between overall throughput optimization and compliance with QoS requirements in an adaptive manner, depending on current flow urgency levels and the current cell load.
Capital Inflows and the Real Exchange Rate: A Comparative Study of Asia and Latin America

The nexus of real exchange rate (RER) and capital inflows is examined through a comparative analysis of the experiences of emerging market economies in Asian and Latin America during the period 1985-2000. It is found that the degree of appreciation in RER associated with capital inflow is uniformly much higher in Latin American countries compared to their Asian counterparts, despite the fact that the latter experienced far greater foreign capital inflows relative to the size of the economy. The econometric evidence suggests that both the composition of capital flows and differences in the degree of response of RER to capital flows matter in explaining these contrasting experiences. While RER appreciation is a phenomenon predominantly associated with other (non-FDI) forms of capital inflows (OCFW), a given level of OCFW brings about a far greater degree of appreciation of the real exchange rate in Latin America where the importance of these flows in total capital inflow is also far greater. On the policy front, Asian countries seem to have used fiscal contraction and nominal exchange rate adjustment more effectively to cushion the RER against the appreciation pressure of capital inflows. There is, however, no evidence to suggest that sterilized intervention can generate a lasting impact on the real exchange rate.
West Nile Virus Differentially Modulates the Unfolded Protein Response To Facilitate Replication and Immune Evasion

ABSTRACT For intracellular survival it is imperative that viruses have the capacity to manipulate various cellular responses, including metabolic and biosynthetic pathways. The unfolded protein response (UPR) is induced by various external and internal stimuli, including the accumulation of misfolded proteins in the endoplasmic reticulum (ER). Our previous studies have indicated that the replication and assembly of the flavivirus West Nile virus strain Kunjin virus (WNVKUN) is intimately associated with the ER. Thus, we sought to determine whether the UPR was induced during WNVKUN infection. WNVKUN induces UPR signaling during replication, which is coordinated with peak replication. Interestingly, signaling is biased toward the ATF6/IRE-1 arm of the response, with high levels of Xbp-1 activation but negligible eukaryotic translation initiation factor 2α phosphorylation and downstream transcription. We show that the PERK-mediated response may partially regulate replication, since external UPR stimulation had a limiting effect on early replication events and cells deficient for PERK demonstrated increased replication and virus release. Significantly, we show that the WNVKUN hydrophobic nonstructural proteins NS4A and NS4B are potent inducers of the UPR, which displayed a high correlation in inhibiting Jak-STAT signaling in response to alpha interferon (IFN-α). Sequential removal of the transmembrane domains of NS4A showed that reducing hydrophobicity decreased UPR signaling and restored IFN-α-mediated activation. Overall, these results suggest that WNVKUN can stimulate the UPR to facilitate replication and that the induction of a general ER stress response, regulated by hydrophobic WNVKUN proteins, can potentiate the inhibition of the antiviral signaling pathway.
Comparative in vitro activities of a new quinolone, OPC-17116, possessing potent activity against gram-positive bacteria

The in vitro antibacterial activity of OPC-17116, a new fluoroquinolone, against a wide variety of clinical isolates was evaluated and compared with those of ciprofloxacin, ofloxacin, and norfloxacin. OPC-17116 showed potent broad-spectrum activity against gram-positive and -negative bacteria. The activity of this compound against gram-positive bacteria was higher than those of other quinolones, and its activity against gram-negative and anaerobic bacteria was roughly comparable to those of other quinolones. OPC-17116 had potent activity against important pathogens of respiratory tract infections such as Staphylococcus aureus, Streptococcus pneumoniae, Klebsiella pneumoniae, Pseudomonas aeruginosa, Haemophilus influenzae, and Branhamella catarrhalis. The MICs of this compound against 90% of these organisms, except for methicillin-resistant S. aureus, ranged from less than or equal to 0.006 to 3.13 micrograms/ml. OPC-17116 at more than one-half the MICs was bactericidal against clinical isolates of S. aureus, Escherichia coli, K. pneumoniae, and P. aeruginosa. The activity of OPC-17116 was decreased by several culture conditions such as acidic pH, high concentration of Mg2+ ions, and inoculum size of 10(7) CFU/ml. OPC-17116 inhibited the supercoiling activity of DNA gyrases from E. coli KL-16 and S. aureus SA113 (50% inhibitory concentrations, 0.19 and 23.0 micrograms/ml, respectively). The amount of OPC-17116 accumulation was higher than that of other quinolones in S. aureus.
Giant Aplysia neuron R2 reliably forms strong chemical connections in vitro

The giant cholinergic neuron R2 of Aplysia was cultured in combination with identified neurons L11 and R15 and members of a group of left upper quadrant (LUQ) cells L2 to L6 from the abdominal ganglion. All of these neurons receive cholinergic input from other cells in vivo, but not from R2. In vitro, R2 reliably formed unidirectional chemical connections with these cells. Single action potentials in R2 produced a dual fast and slow inhibitory response in LUQ cells (L2 to L6), a dual fast inhibitory-slow excitatory response in L11, and a slow inhibitory response in R15. The connections formed on LUQ cells were characteristic of their cholinergic input, but the R2-L11 and the R2-R15 connections also had noncholinergic properties. Thus, unlike L10 which forms connections only with its normal targets in vitro, R2 forms strong chemical connections with other neurons which are not found in vivo. The properties of the R2 connections also suggest that it may release another neurotransmitter besides acetylcholine.
Improved discriminative training techniques for large vocabulary continuous speech recognition

Investigates the use of discriminative training techniques for large vocabulary speech recognition with training datasets up to 265 hours. Techniques for improving lattice-based maximum mutual information estimation (MMIE) training are described and compared to frame discrimination (FD). An objective function which is an interpolation of MMIE and standard maximum likelihood estimation (MLE) is also discussed. Experimental results on both the Switchboard and North American Business News tasks show that MMIE training can yield significant performance improvements over standard MLE even for the most complex speech recognition problems with very large training sets.
A Complexity Dichotomy for Finding Disjoint Solutions of Vertex Deletion Problems

We investigate the computational complexity of a general “compression task” centrally occurring in the recently developed technique of iterative compression for exactly solving NP-hard minimization problems. The core issue (particularly but not only motivated by iterative compression) is to determine the computational complexity of the following task: given an already inclusion-minimal solution for an underlying (typically NP-hard) vertex deletion problem in graphs, find a smaller disjoint solution. The complexity of this task is so far lacking a systematic study. We consider a large class of vertex deletion problems on undirected graphs and show that a few cases are polynomial-time solvable, and the others are NP-hard. The considered class of vertex deletion problems includes Vertex Cover (where the compression task is polynomial time) and Undirected Feedback Vertex Set (where the compression task is NP-complete).
Nasal continuous positive airway pressure versus nasal intermittent positive-pressure ventilation within the minimally invasive surfactant therapy approach in preterm infants: a randomised controlled trial

Objective To compare the effectiveness of nasal continuous positive airway pressure (NCPAP) and nasal intermittent positive-pressure ventilation (NIPPV) as the initial respiratory support within the minimally invasive surfactant therapy (MIST) approach in preterm infants with respiratory distress syndrome. Design Prospective, randomised controlled study. Setting Tertiary neonatal intensive care unit. Patients and interventions This study enrolled 200 preterm infants with a gestational age of 26–32 weeks who showed signs of respiratory distress but did not require intubation in the delivery room. Surfactant therapy was performed using the MIST approach in the patients who met the criteria for surfactant administration. Main outcome measures The primary outcomes were a need for intubation within the first 72 h of life and a surfactant requirement. Results The infants in the study displayed similar characteristics at birth. Fewer infants in the NIPPV group required surfactant therapy (38% vs 60%; p=0.002) or invasive ventilation during the first 72 h of life (13% vs 29%; p=0.005), and NIPPV reduced the rate of moderate-to-severe bronchopulmonary dysplasia (BPD) (7% vs 16%; p=0.046). Multivariate logistic regression analysis showed that NIPPV support (OR: 0.36, 95% CI 0.17 to 0.76; p=0.008) and higher gestational age (OR: 0.76, 95% CI 0.59 to 0.98; p=0.041) reduced the need for invasive ventilation within the first 72 h of life. Surfactant requirement was also decreased with NIPPV support (OR: 0.39, 95% CI 0.22 to 0.71; p=0.002). However, there was no impact on BPD, based on the multivariate analysis. Conclusions In infants born at 26–32 weeks’ gestation, NIPPV reduced the need for invasive ventilation and the surfactant requirement within the MIST approach. Trial registration number ClinicalTrials.gov under identifier NCT01741129.
Modeling Rational Agents within a BDI-Architecture

Intentions, an integral part of the mental state of an agent, play an important role in determining the behavior of rational agents as they seek to attain their goals. In this paper, a formalization of intentions based on a branching-time possible-worlds model is presented. It is shown how the formalism realizes many of the important elements of Bratman’s theory of intention. In particular, the notion of intention developed here has equal status with the notions of belief and desire, and cannot be reduced to these concepts. This allows di(cid:11)erent types of rational agents to be modeled by imposing certain conditions on the persistence of an agent’s beliefs, goals, and intentions. Finally, the formalismis compared with Bratman’s theory of intention and Cohen and Levesque’s formalization of intentions.