Miracle-dz/UniFAR-FTUs huggingface dataset:
Progress toward understanding the ecological impacts of nonnative species

A predictive understanding of the ecological impacts of nonnative species has been slow to develop, owing largely to an apparent dearth of clearly defined hypotheses and the lack of a broad theoretical framework. The context dependency of impact has fueled the perception that meaningful generalizations are nonexistent. Here, we identified and reviewed 19 testable hypotheses that explain temporal and spatial variation in impact. Despite poor validation of most hypotheses to date, evidence suggests that each can explain at least some impacts in some situations. Several hypotheses are broad in scope (applying to plants and animals in virtually all contexts) and some of them, intriguingly, link processes of colonization and impact. Collectively, these hypotheses highlight the importance of the functional ecology of the nonnative species and the structure, diversity, and evolutionary experience of the recipient community as general determinants of impact; thus, they could provide the foundation for a theoretical framework for understanding and predicting impact. Further substantive progress toward this goal requires explicit consideration of within-taxon and across-taxa variation in the per capita effect of invaders, and analyses of complex interactions between invaders and their biotic and abiotic environments.
Analog placement with common centroid and 1-D symmetry constraints

In this paper, we will present a placement method for analog circuits. We consider both common centroid and 1-D symmetry constraints, which are the two most common types of placement requirements in analog designs. The approach is based on a symmetric feasible condition on the sequence pair representation that can cover completely the set of all placements satisfying the common centroid and 1-D symmetry constraints. This condition is essential for a good searching process to solve the problem effectively. Symmetric placement is an important step to achieve matchings of other electrical properties like delay and temperature variation. We have compared our results with those presented in the most updated previous works. Significant improvements can be obtained by our approach in both common centroid and 1-D symmetry placements, and we are the first who can handle both constraints simultaneously.
Correlating Multicrystalline Silicon Defect Types Using Photoluminescence, Defect-band Emission, and Lock-in Thermography Imaging Techniques

A set of neighboring multicrystalline silicon wafers has been processed through different steps of solar cell manufacturing and then images were collected for characterization. The imaging techniques include band-to-band photoluminescence (PL), defect-band or subbandgap PL (subPL), and dark lock-in thermography (DLIT). Defect regions can be tracked from as-cut wafers throughout processing to the finished cells. The finished cell's defect regions detected by band-to-band PL imaging correlate well to diffusion length and quantum efficiency maps. The most detrimental defect regions, type A, also correlate well to reverse-bias breakdown areas as shown in DLIT images. These type A defect regions appear dark in band-to-band PL images, and have subPL emissions. The subPL of type A defects shows strong correlations to poor cell performance and high reverse breakdown at the starting wafer steps (as-cut and textured), but the subPL becomes relatively weak after antireflection coating (ARC) and on the finished cell. Type B defects are regions that have lower defect density but still show detrimental cell performance. After ARC, type B defects emit more intense subPL than type A regions; consequently, type B subPL also shows better correlation to cell performance at the starting wafer steps rather than at the ARC process step and in the finished cell.
Bridged filaments of histone-like nucleoid structuring protein pause RNA polymerase and aid termination in bacteria

Bacterial H-NS forms nucleoprotein filaments that spread on DNA and bridge distant DNA sites. H-NS filaments co-localize with sites of Rho-dependent termination in Escherichia coli, but their direct effects on transcriptional pausing and termination are untested. In this study, we report that bridged H-NS filaments strongly increase pausing by E. coli RNA polymerase at a subset of pause sites with high potential for backtracking. Bridged but not linear H-NS filaments promoted Rho-dependent termination by increasing pause dwell times and the kinetic window for Rho action. By observing single H-NS filaments and elongating RNA polymerase molecules using atomic force microscopy, we established that bridged filaments surround paused complexes. Our results favor a model in which H-NS-constrained changes in DNA supercoiling driven by transcription promote pausing at backtracking-susceptible sites. Our findings provide a mechanistic rationale for H-NS stimulation of Rho-dependent termination in horizontally transferred genes and during pervasive antisense and noncoding transcription in bacteria. DOI: http://dx.doi. org/10.7554/eLife.04970. 001
The 2017 Jiuzhaigou Earthquake: A Complicated Event Occurred in a Young Fault System

The Minshan Uplift Zone (MUZ) is located at the eastern margin of the Tibetan Plateau, which is the junction of three tectonic terranes. The observed discrepancy between a high uplifting and low shortening rate over the MUZ is attributed to the intrusion of a viscous lower crust. In the last 50 years, several significant earthquakes occurred at the boundaries of the MUZ, that is, the Huya and Mingjiang faults. On 8 August 2017, the Jiuzhaigou earthquake (Mw 6.5) occurred on the northern extension of the Huya fault. We adopt a joint inversion of the interferometric synthetic aperture radar and teleseismic body wave data to investigate the rupture process of this event. The obtained slip model is dominated by left‐lateral strike slips on a subvertical fault presenting significant shallow slip deficit. The rupture initiation is composed of both thrust and strike‐slip mechanisms producing a non‐double‐couple solution. We also resolve a secondary fault branch forming an obtuse angle with the main fault plane at its northern end. These phenomena indicate that the northern Huya fault is a young (less mature) fault system. Focal mechanisms of the regional earthquakes demonstrate that the northern and southern Huya faults present different combinations of strike‐slip and reversed motion. We attribute such discrepancy to the lateral extension of the viscous lower crust, which appears to extrude to the east beyond the northern Huya fault, in comparison with that confined under the MUZ near the southern Huya fault. This conceptual model is also supported by geomorphological and magnetotelluric observations.
A sensitive and selective electrochemical biosensor for the determination of beta-amyloid oligomer by inhibiting the peptide-triggered in situ assembly of silver nanoparticles

Soluble beta-amyloid (Aβ) oligomer is believed to be the most important toxic species in the brain of Alzheimer’s disease (AD) patients. Thus, it is critical to develop a simple method for the selective detection of Aβ oligomer with low cost and high sensitivity. In this paper, we report an electrochemical method for the detection of Aβ oligomer with a peptide as the bioreceptor and silver nanoparticle (AgNP) aggregates as the redox reporters. This strategy is based on the conversion of AgNP-based colorimetric assay into electrochemical analysis. Specifically, the peptide immobilized on the electrode surface and presented in solution triggered together the in situ formation of AgNP aggregates, which produced a well-defined electrochemical signal. However, the specific binding of Aβ oligomer to the immobilized peptide prevented the in situ assembly of AgNPs. As a result, a poor electrochemical signal was observed. The detection limit of the method was found to be 6 pM. Furthermore, the amenability of this method for the analysis of Aβ oligomer in serum and artificial cerebrospinal fluid (aCSF) samples was demonstrated.
Transcranial Alternating Current Stimulation (tACS) Enhances Mental Rotation Performance during and after Stimulation

Transcranial alternating current stimulation (tACS) has been repeatedly demonstrated to modulate endogenous brain oscillations in a frequency specific manner. Thus, it is a promising tool to uncover causal relationships between brain oscillations and behavior or perception. While tACS has been shown to elicit a physiological aftereffect for up to 70 min, it remains unclear whether the effect can still be elicited if subjects perform a complex task interacting with the stimulated frequency band. In addition, it has not yet been investigated whether the aftereffect is behaviorally relevant. In the current experiment, participants performed a Shepard-like mental rotation task for 80 min. After 10 min of baseline measurement, participants received either 20 min of tACS at their individual alpha frequency (IAF) or sham stimulation (30 s tACS in the beginning of the stimulation period). Afterwards another 50 min of post-stimulation EEG were recorded. Task performance and EEG were acquired during the whole experiment. While there were no effects of tACS on reaction times or event-related-potentials (ERPs), results revealed an increase in mental rotation performance in the stimulation group as compared to sham both during and after stimulation. This was accompanied by increased ongoing alpha power and coherence as well as event-related-desynchronization (ERD) in the alpha band in the stimulation group. The current study demonstrates a behavioral and physiological aftereffect of tACS in parallel. This indicates that it is possible to elicit aftereffects of tACS during tasks interacting with the alpha band. Therefore, the tACS aftereffect is suitable to achieve an experimental manipulation.
Light-Induced Changes in Spike Synchronization between Coupled ON Direction Selective Ganglion Cells in the Mammalian Retina

Although electrical coupling via gap junctions is prevalent among ganglion cells in the vertebrate retina, there have been few direct studies of their influence on the light-evoked signaling of these cells. Here, we describe the pattern and function of coupling between the ON direction selective (DS) ganglion cells, a unique subtype whose signals are transmitted to the accessory optic system (AOS) where they initiate the optokinetic response. ON DS cells are coupled indirectly via gap junctions made with a subtype of polyaxonal amacrine cell. This coupling underlies synchronization of the spontaneous and light-evoked spike activity of neighboring ON DS cells. However, we find that ON DS cell pairs show robust synchrony for all directions of stimulus movement, except for the null direction. Null stimulus movement evokes a GABAergic inhibition that temporally shifts firing of ON DS cell neighbors, resulting in a desynchronization of spike activity. Thus, detection of null stimulus movement appears key to the direction selectivity of ON DS cells, evoking both an attenuation of spike frequency and a desynchronization of neighbors. We posit that active desynchronization reduces summation of synaptic potentials at target AOS cells and thus provides a secondary mechanism by which ON DS cell ensembles can signal direction of stimulus motion to the brain.
Vienna surfing: assessing mobile broadband quality in the field

This paper presents our findings from a mobile broadband QoE field trial conducted in the city of Vienna, Austria. Using their own laptops in everyday contexts, participants regularly assessed the quality of their mobile broadband connection (tasks: web surfing, file downloads) which in the background was manipulated via traffic shaping throughout a period of three weeks. We discuss our study setup and observations of field trial participant behavior (rating patterns, times, contexts, etc.) as well as the results and lessons learned from correlating end user QoE ratings with measurements performed at client and network level. In addition, we compare our results with those from similar lab experiments, showing that the two evaluation contexts (lab, field) cannot be used interchangeably due to deviant QoE rating behavior of participants.
Assembly of a 3D Cellular Computer Using Folded E-Blocks

The assembly of integrated circuits in three dimensions (3D) provides a possible solution to address the ever-increasing demands of modern day electronic devices. It has been suggested that by using the third dimension, devices with high density, defect tolerance, short interconnects and small overall form factors could be created. However, apart from pseudo 3D architecture, such as monolithic integration, die, or wafer stacking, the creation of paradigms to integrate electronic low-complexity cellular building blocks in architecture that has tile space in all three dimensions has remained elusive. Here, we present software and hardware foundations for a truly 3D cellular computational devices that could be realized in practice. The computing architecture relies on the scalable, self-configurable and defect-tolerant cell matrix. The hardware is based on a scalable and manufacturable approach for 3D assembly using folded polyhedral electronic blocks (E-blocks). We created monomers, dimers and 2 × 2 × 2 assemblies of polyhedral E-blocks and verified the computational capabilities by implementing simple logic functions. We further show that 63.2% more compact 3D circuits can be obtained with our design automation tools compared to a 2D architecture. Our results provide a proof-of-concept for a scalable and manufacture-ready process for constructing massive-scale 3D computational devices.
The Effects of Monosodium Glutamate and Tannic Acid on Adult Rats

Background Monosodium glutamate (MSG) is a widely-used flavor enhancer and stabilizer in ready-made or packaged foods. The excessive use of MSG has been shown to increase oxidative stress in different organ systems and causes glucose metabolism disorders, obesity, and coronary diseases. Objectives In this study, the antioxidant activity of tannic acid was investigated experimentally with respect to its protective effects against overdosed MSG-induced oxidative stress in rats. The study took place in Turkey in August 2013. Methods Four groups (n = 7) of three- to four-month-old Sprague-Dawley female rats were used in this study. The first group was the control, who were administered saline. The second group received tannic acid (50 mg/kg, 3 days) intraperitoneally (i.p.). The third group received MSG (2 g/kg, 7 days) i.p., and the fourth group received both tannic acid (50 mg/kg, 3 days, pretreatment) and MSG (2 g/kg, 7 days) i.p. The animals were euthanized ten days later. Blood was collected for determining the hematological values and blood glucose levels. Superoxide dismutase (SOD) and malondialdehyde (MDA) levels were determined in the brain, liver, and kidney homogenates, and in the erythrocyte hemolysate. Histopathological examination of the brain, liver, and kidneys was conducted through hematoxylin-eosin staining. Results The data showed that the tannic acid treatment statistically decreased the MDA levels in the brain tissues of the group administered MSG and tannic acid (P < 0.001) when compared to the corresponding values of the control group. The SOD activities in the blood hemolysates of the MSG and tannic acid group increased when compared to the corresponding values for the MSG group (P < 0.01). Additionally, we found that pretreatment with tannic acid reduced blood glucose levels in comparison to the levels of the MSG group (P = 0.029). The results of our study show that tannic acid pretreatment in adult rats decreased blood glucose levels and oxidative stress. Conclusions In the literature, it was observed that short-term MSG exposure does not cause significant histological changes in the kidneys, liver, or brain cortex. These findings should be re-evaluated in additional long-term studies.
Severity of coronary artery disease is associated with non-alcoholic fatty liver dis-ease: A single-blinded prospective mono-center study

Background and aims Liver steatosis has shown to be associated with coronary artery disease (CAD). The aim of our study was to evaluate the association between the presence and severity of CAD and Non-alcoholic fatty liver disease (NAFLD) assessed by transient elastography (TE) and controlled attenuation parameter (CAP). Methods 576 Patients undergoing coronary angiography were enrolled in this prospective study, receiving at least 10 TE and CAP measurements using the FibroScan® M-probe. Clinically relevant CAD (CAD 3) was defined as stenosis with ≥75% reduction of the luminal diameter. NAFLD was determined by CAP ≥234 dB/m. NAFLD with advanced fibrosiswas determined by TE-values ≥7.9kPa in the presence of NAFLD and absence of congestive or right-sided heart failure. Rates and 95% confidence intervals are shown. Results 505 patients were available for analysis of NAFLD. However, only 392 patients were available for analysis of NAFLD with advanced fibrosis, since 24 patients had to be excluded due to non valid TE-measurements and 89 patients due to congestive or right-sided heart failure or suspected concomitant liver disease, respectively. 70.5% (66.3%-74.4%) of patients had CAD 3, 71.5% (67.3%-75.4%) were diagnosed with NAFLD, and 11.2% (8.3%-14.8%) with NAFLD with advanced fibrosis. Patients with CAD 3 had higher median CAP-values (273±61 vs. 260±66 dB/m; p = 0.038) and higher degrees of steatosis as compared to patients without CAD 3. While NAFLD was significantly more often diagnosed in patients with CAD 3 (75.0% vs. 63.1%, p = 0.0068), no significant difference was found for NAFLD with advanced fibrosis (10.7% vs. 12.5%, p = 0.60). Conclusions Clinically relevant CAD is frequently associated with the presence of NAFLD, but not NAFLD with advanced fibrosis.
Eliminating the Weakest Link: Making Manipulation Intractable?

Successive elimination of candidates is often a route to making manipulation intractable to compute. We prove that eliminating candidates does not necessarily increase the computational complexity of manipulation. However, for many voting rules used in practice, the computational complexity increases. For example, it is already known that it is NP-hard to compute how a single voter can manipulate the result of single transferable voting (the elimination version of plurality voting). We show here that it is NP-hard to compute how a single voter can manipulate the result of the elimination version of veto voting, of the closely related Coombs’ rule, and of the elimination versions of a general class of scoring rules.
Silent brain infarcts and leukoaraiosis in young adults with first-ever ischemic stroke

Background: We recently observed that 13% of 1,008 consecutive adults aged 15–49 years with first-ever ischemic stroke had one or more silent brain infarcts (SBIs), and more than 5% presented with leukoaraiosis on CT or MRI. We sought to investigate the features of and risk factors for magnetic resonance (MR)-defined SBIs and leukoaraiosis in these patients. Methods: We analyzed the radiologic features of SBIs and leukoaraiosis in MR-scanned patients (n = 669) blinded to clinical data and examined their relation with subtype of the overt stroke. We used logistic regression to identify factors predisposing to SBIs and leukoaraiosis. Results: Of the 669 patients included, 86 (13%) had SBIs, 50 (7%) had leukoaraiosis, 17 (3%) had both, and 550 had no SBIs or leukoaraiosis and served as controls. The majority (54%) had a single SBI, 20% had two SBIs, and 27% had three or more SBIs. Most SBIs were located in basal ganglia (39%) or subcortical regions (21%), but cerebellar SBIs also were rather frequent (15%). Leukoaraiosis was mainly mild to moderate. Independent risk factors for SBIs were type 1 diabetes (odds ratio [OR] 5.78, 95% confidence interval 2.37–14.10), obesity (OR 2.12, 1.07–4.19), smoking (OR 1.69, 1.05–2.72), and increasing age (OR 1.08, 1.04–1.13). Risk factors for leukoaraiosis were type 1 diabetes (OR 9.75, 3.39–28.04), obesity (OR 2.42, 1.04–5.68), female sex (OR 2.25, 1.16–4.34), and increasing age (OR 1.19, 1.10–1.29). Small-vessel disease was the predominant cause of stroke in both those with SBIs (31%) and leukoaraiosis (44%). Conclusions: Silent brain infarcts and leukoaraiosis are not uncommon among young stroke patients—type 1 diabetes being the strongest risk factor.
Contrast Injection Protocols for Coronary Computed Tomography Angiography Using a 64-Detector Scanner: Comparison Between Patient Weight-Adjusted- and Fixed Iodine-Dose Protocols

Objective:To compare patient-weight-adjusted and fixed iodine-dose protocols at coronary computed tomography angiography (CTA) using a 64-detector scanner and computer-assisted bolus tracking. Materials and Methods:Approval from our institutional review board and patient prior informed consent were obtained before entering 60 patients with suspected coronary disease in this study. The patients were randomly assigned to one of 2 protocols. In the fixed iodine-dose protocol, they received a fixed dose of 80 mL Iopamidol-370; the injection duration was 20 seconds. In the weight-adjusted iodine-dose protocol, the dose was tailored to the patient body weight; this group received 1.0 mL/kg and the injection duration was shorter, ie, 15 seconds. Imaging was on a 64-detector CT scanner using a computer-assisted bolus tracking technique. A radiologist blinded to the protocol used measured the Hounsfield density number of the large vessels and coronary arteries. CT attenuation in the aortic root was compared in patients whose weight was less than 58 kg (group 1) or 58 kg or more (group 2). The standard deviation (SD) of CT attenuation in the aortic root and the myocardium was compared with evaluate image noise. Using a 3-point scale, 2 radiologists independently evaluated beam-hardening artifacts and coronary enhancement. Statistical analysis was with the two-tailed Student t test and the Mann-Whitney U test. Results:There was no significant difference between the protocols with respect to CT attenuation of the ascending aorta and coronary arteries. Under the fixed-iodine-dose protocol, mean CT attenuation in the aortic root was 421.3 ± 51.5 Hounsfield unit (HU) in the lighter-, and 397.2 ± 42.3 HU in the heavier weight group, respectively; the difference was statistically significant (P = 0.03). Under the weight-adjusted iodine-dose protocol, these values were 407.6 ± 85.1 and 409.2 ± 47.9 HU, respectively and the difference was not statistically significant (P = 0.17). The SD of the ascending aorta and myocardium was significantly higher for the fixed- than the weight-adjusted iodine-dose protocol. The mean visual score for beam-hardening artifacts was significantly lower in the weight-adjusted- than the fixed-iodine-dose protocol (P < 0.01), however, there was no significant difference in the enhancement of the coronary arteries (P = 0.82). Conclusion:At 64-detector CTA of the heart, the patient weight-tailored dose protocol with the 15-second injection duration yielded significantly better image quality than the fixed-dose, 20-second injection duration protocol.