FFTrees: A toolbox to create, visualize, and evaluate fast-and-frugal decision trees

Fast-and-frugal trees (FFTs) are simple algorithms that facilitate efficient and accurate decisions based on limited information. But despite their successful use in many applied domains, there is no widely available toolbox that allows anyone to easily create, visualize, and evaluate FFTs. We fill this gap by introducing the R package FFTrees. In this paper, we explain how FFTs work, introduce a new class of algorithms called fan for constructing FFTs, and provide a tutorial for using the FFTrees package. We then conduct a simulation across ten real-world datasets to test how well FFTs created by FFTrees can predict data. Simulation results show that FFTs created by FFTrees can predict data as well as popular classification algorithms such as regression and random forests, while remaining simple enough for anyone to understand and use

Ethanolic extract of Jatropha gossypifolia exacerbates Potassium Bromate-induced clastogenicity, hepatotoxicity, and lipid peroxidation in rats

Extracts of J. gossypifolia L. have been reported to have several medicinal values, including potential anti-cancer and anti-inflammatory properties. In this study, we investigated the anti-clastogenic and hepatoprotective, effects of the ethanolic leaf extract of J. gossypifolia L. in potassium bromate (KBrO3)-induced toxicity in rats. The general trend of the results indicates significant increases (p < 0.05) in mean values when toxicant (KBrO3) only group is compared with normal control group, except for catalase where a significant decrease (p < 0.05) was recorded. Surprisingly, treatment of the toxic effects of KBrO3 by J. gossypifolia did not lower the mean values of any of these parameters investigated. Instead, there were significant increases (p < 0.05) in the mean number of bone marrow micronucleated polychromatic erythrocytes (mPCEs), plasma malondialdehyde (MDA) concentration, aspartate aminotransferase, alanine aminotransferase, alkaline phosphatase, and gamma glutamyl transferase activities, and sodium, while the increases in mean concentrations of creatinine, urea, and potassium were not significant (p > 0.05). Also, there was a further reduction in the activity of catalase by J. gossypifolia treatment, and was also not significant (p > 0.05). We therefore concluded that the ethanolic leaf extract of J. gossypifolia may not have a protective role against chromosomal and liver damage in KBrO3-induced toxicity, but complicating effects.Keywords: Jatropha gossypifolia, KBrO3, ethanolic extract, toxicity, rat

X-ray structure of a soluble Rieske-type ferredoxin from Mus musculus

The X-ray crystal structure of a soluble Rieske ferredoxin from M. musculus was solved at 2.07 Å resolution, revealing an iron–sulfur cluster-binding domain with similar architecture to the Rieske-type domains of bacterial aromatic dioxygenases. The ferredoxin was also shown to be capable of accepting electrons from both eukaryotic and prokaryotic oxidoreductases

A systematic investigation of the intrinsic flow properties of fractures using a combined 3D printing and micro-computed tomography approach

Geological storage operations spanning energy, nuclear material and carbon dioxide (CO2) storage, require meticulous understanding of the integrity of geological seals over a range of temporal and spatial scales. Fluid-conductive fault and fracture systems in otherwise low-permeability rocks may threaten seal performance and compromise subsurface storage projects. The understanding of these systems is complicated by the occurrence of anisotropic aperture distribution caused by inherent surface roughness. Difficulties predicting fluid flow through fractures stems from our limited understanding of the fundamental controls on their intrinsic permeabilities, and the prevalence, severity and complexity of hydromechanical responses arising from the coupling of multiphase flow, pore pressure and effective stress. In this study, we systematically investigated the effect of surface roughness on the transport properties of 3D-printed (Acrylonitrile Butadiene Styrene resin) fracture surfaces with micrometre surface roughness distributions. We printed 11 separate fractures, 7 of which are synthetically generated self-affine surfaces encompassing a range of fractal dimensions (Df = 1.2 to 2.4) observed in nature. The remaining 4 are acquired from micrometre-scale surface scans from natural fractures within the Carmel mudrock, a caprock from a natural CO2 leakage site in Utah, USA. Fluid flow experiments using single (brine) and multiple fluids (decane and brine) are undertaken to investigate the fluid pathways and interactions between each phase across a range of effective stresses (5 to 25 bar). We investigate the interplay between multiphase flow dynamics, surface roughness and hydraulic aperture distribution to gain insight into the intrinsic transport properties of fractures with different origins of roughness. Experiments are performed and imaged using a micro-computed tomography scanner (EMCT; (Bultreys et al., 2016)), where the results can be used to further the understanding of the governing parameters influencing fracture transmissivity, while also constraining surface roughness inputs for single- and multiphase fracture flow models

Viral Networks: Connecting Digital Humanities and Medical History

This volume of original essays explores the power of network thinking and analysis for humanities research. Contributing authors are all scholars whose research focuses on a medical history topic—from the Black Death in fourteenth-century Provence to psychiatric hospitals in twentieth-century Alabama. The chapters take readers through a variety of situations in which scholars must determine if network analysis is right for their research; and, if the answer is yes, what the possibilities are for implementation. Along the way, readers will find practical tips on identifying an appropriate network to analyze, finding the best way to apply network analysis, and choosing the right tools for data visualization. All the chapters in this volume grew out of the 2018 Viral Networks workshop, hosted by the History of Medicine Division of the National Library of Medicine (NIH), funded by the Office of Digital Humanities of the National Endowment for the Humanities, and organized by Virginia Tech

Age-dependent human beta cell proliferation induced by glucagon-like peptide 1 and calcineurin signaling

Inadequate pancreatic beta cell function underlies type 1 and type 2 diabetes mellitus. Strategies to expand functional cells have focused on discovering and controlling mechanisms that limit the proliferation of human beta cells. Here, we developed an engraftment strategy to examine age-associated human islet cell replication competence and reveal mechanisms underlying age-dependent decline of beta cell proliferation in human islets. We found that exendin-4 (Ex-4), an agonist of the glucagon-like peptide 1 receptor (GLP-1R), stimulates human beta cell proliferation in juvenile but not adult islets. This age-dependent responsiveness does not reflect loss of GLP-1R signaling in adult islets, since Ex-4 treatment stimulated insulin secretion by both juvenile and adult human beta cells. We show that the mitogenic effect of Ex-4 requires calcineurin/nuclear factor of activated T cells (NFAT) signaling. In juvenile islets, Ex-4 induced expression of calcineurin/NFAT signaling components as well as target genes for proliferation-promoting factors, including NFATC1, FOXM1, and CCNA1. By contrast, expression of these factors in adult islet beta cells was not affected by Ex-4 exposure. These studies reveal age-dependent signaling mechanisms regulating human beta cell proliferation, and identify elements that could be adapted for therapeutic expansion of human beta cells

Radar sounding evidence for buried glaciers in the southern mid-latitudes of Mars

Lobate features abutting massifs and escarpments in the middle latitudes of Mars have been recognized in images for decades, but their true nature has been controversial, with hypotheses of origin such as ice-lubricated debris flows or glaciers covered by a layer of surface debris. These models imply an ice content ranging from minor and interstitial to massive and relatively pure. Soundings of these deposits in the eastern Hellas region by the Shallow Radar on the Mars Reconnaissance Orbiter reveal radar properties entirely consistent with massive water ice, supporting the debris-covered glacier hypothesis. The results imply that these glaciers formed in a previous climate conducive to glaciation at middle latitudes. Such features may collectively represent the most extensive nonpolar ice yet recognized on Mars

Ethanolic extract of Jatropha gossypifolia exacerbates Potassium Bromate-induced clastogenicity, hepatotoxicity, and lipid peroxidation in rats

Extracts of J. gossypifolia L. have been reported to have several medicinal values, including potential anti-cancer and anti-inflammatory properties. In this study, we investigated the anti-clastogenic and hepatoprotective, effects of the ethanolic leaf extract of J. gossypifolia L. in potassium bromate (KBrO3)-induced toxicity in rats. The general trend of the results indicates significant increases (p < 0.05) in mean values when toxicant (KBrO3) only group is compared with normal control group, except for catalase where a significant decrease (p < 0.05) was recorded. Surprisingly, treatment of the toxic effects of KBrO3 by J. gossypifolia did not lower the mean values of any of these parameters investigated. Instead, there were significant increases (p < 0.05) in the mean number of bone marrow micronucleated polychromatic erythrocytes (mPCEs), plasma malondialdehyde (MDA) concentration, aspartate aminotransferase, alanine aminotransferase, alkaline phosphatase, and gamma glutamyl transferase activities, and sodium, while the increases in mean concentrations of creatinine, urea, and potassium were not significant (p > 0.05). Also, there was a further reduction in the activity of catalase by J. gossypifolia treatment, and was also not significant (p > 0.05). We therefore concluded that the ethanolic leaf extract of J. gossypifolia may not have a protective role against chromosomal and liver damage in KBrO3-induced toxicity, but complicating effects

Improved Standardization of Type II-P Supernovae: Application to an Expanded Sample

In the epoch of precise and accurate cosmology, cross-confirmation using a variety of cosmographic methods is paramount to circumvent systematic uncertainties. Owing to progenitor histories and explosion physics differing from those of Type Ia SNe (SNe Ia), Type II-plateau supernovae (SNe II-P) are unlikely to be affected by evolution in the same way. Based on a new analysis of 17 SNe II-P, and on an improved methodology, we find that SNe II-P are good standardizable candles, almost comparable to SNe Ia. We derive a tight Hubble diagram with a dispersion of 10% in distance, using the simple correlation between luminosity and photospheric velocity introduced by Hamuy & Pinto 2002. We show that the descendent method of Nugent et al. 2006 can be further simplified and that the correction for dust extinction has low statistical impact. We find that our SN sample favors, on average, a very steep dust law with total to selective extinction R_V<2. Such an extinction law has been recently inferred for many SNe Ia. Our results indicate that a distance measurement can be obtained with a single spectrum of a SN II-P during the plateau phase combined with sparse photometric measurements.Comment: ApJ accepted version. Minor change

Merging Resource Availability with Isotope Mixing Models: The Role of Neutral Interaction Assumptions

Background: Bayesian mixing models have allowed for the inclusion of uncertainty and prior information in the analysis of trophic interactions using stable isotopes. Formulating prior distributions is relatively straightforward when incorporating dietary data. However, the use of data that are related, but not directly proportional, to diet (such as prey availability data) is often problematic because such information is not necessarily predictive of diet, and the information required to build a reliable prior distribution for all prey species is often unavailable. Omitting prey availability data impacts the estimation of a predator's diet and introduces the strong assumption of consumer ultrageneralism (where all prey are consumed in equal proportions), particularly when multiple prey have similar isotope values. Methodology: We develop a procedure to incorporate prey availability data into Bayesian mixing models conditional on the similarity of isotope values between two prey. If a pair of prey have similar isotope values (resulting in highly uncertain mixing model results), our model increases the weight of availability data in estimating the contribution of prey to a predator's diet. We test the utility of this method in an intertidal community against independently measured feeding rates. Conclusions: Our results indicate that our weighting procedure increases the accuracy by which consumer diets can be inferred in situations where multiple prey have similar isotope values. This suggests that the exchange of formalism for predictive power is merited, particularly when the relationship between prey availability and a predator's diet cannot be assumed for all species in a system.National Science Foundation (NSF) [DEB-0608178]U.S. Environmental Protection AgencyDepartment of EducationSigma XiUniversity of ChicagoFundacao de Amparo a Pesquisa do Estado de Sao Paulo (FAPESP)(CAPES) Coordenacao de Aperfeicoamento de Pessoal de Nivel Superiori