All Possible Regressions Using IBM SPSS: A Practitioner’s Guide to Automatic Linear Modeling

Although the all possible subsets regression procedure (or all possible regressions) has been a preferred method for selecting the “best” model in multiple regression, it might not have been the most frequently used method by SPSS users partly due to its time consuming nature of evaluating all possible combinations of multiple regression models. Starting with Version 19, however, IBM SPSS introduced a new procedure called Automatic Linear Modeling, enabling researchers to select best subsets automatically. While the arrival of this new procedure is highly welcomed by researchers, practitioners, and students, it has also raised a potential threat of misuse due to its apparent simplicity. The purpose of this paper is to provide brief information on all possible regressions and to provide a practical guide on how to make the best use of Automatic Linear Modeling

Study of Constrained Minimal Supersymmetry

Taking seriously phenomenological indications for supersymmetry, we have made a detailed study of unified minimal SUSY, including effects at the few percent level in a consistent fashion. We report here a general analysis without choosing a particular unification gauge group. We find that the encouraging SUSY unification results of recent years do survive the challenge of a more complete and accurate analysis. Taking into account effects at the 5-10% level leads to several improvements of previous results, and allows us to sharpen our predictions for SUSY in the light of unification. We perform a thorough study of the parameter space. The results form a well-defined basis for comparing the physics potential of different facilities. Very little of the acceptable parameter space has been excluded by LEP or FNAL so far, but a significant fraction can be covered when these accelerators are upgraded. A number of initial applications to the understanding of the SUSY spectrum, detectability of SUSY at LEP II or FNAL, BR($b\to s\gamma$), Width($Z\to b\bar b$), dark matter, etc, are included in a separate section. We formulate an approach to extracting SUSY parameters from data when superpartners are detected. For small tan(beta) or large $m_top$ both $M_half$ and $M_0$ are entirely bounded from above at O(1 tev) without having to use a fine-tuning constraint.Comment: Michigan preprint UM-TH-93-24, LaTeX, 60 pages without figures. Complete paper with inline figures available by anonymous ftp to williams.physics.lsa.umich.edu in /pub/preprints/UM-TH-93-24.ps.Z (uncompresses to 10MB / 77 pages), or by e-mailing reques

Temperature Control of Fimbriation Circuit Switch in Uropathogenic Escherichia coli: Quantitative Analysis via Automated Model Abstraction

Uropathogenic Escherichia coli (UPEC) represent the predominant cause of urinary tract infections (UTIs). A key UPEC molecular virulence mechanism is type 1 fimbriae, whose expression is controlled by the orientation of an invertible chromosomal DNA element—the fim switch. Temperature has been shown to act as a major regulator of fim switching behavior and is overall an important indicator as well as functional feature of many urologic diseases, including UPEC host-pathogen interaction dynamics. Given this panoptic physiological role of temperature during UTI progression and notable empirical challenges to its direct in vivo studies, in silico modeling of corresponding biochemical and biophysical mechanisms essential to UPEC pathogenicity may significantly aid our understanding of the underlying disease processes. However, rigorous computational analysis of biological systems, such as fim switch temperature control circuit, has hereto presented a notoriously demanding problem due to both the substantial complexity of the gene regulatory networks involved as well as their often characteristically discrete and stochastic dynamics. To address these issues, we have developed an approach that enables automated multiscale abstraction of biological system descriptions based on reaction kinetics. Implemented as a computational tool, this method has allowed us to efficiently analyze the modular organization and behavior of the E. coli fimbriation switch circuit at different temperature settings, thus facilitating new insights into this mode of UPEC molecular virulence regulation. In particular, our results suggest that, with respect to its role in shutting down fimbriae expression, the primary function of FimB recombinase may be to effect a controlled down-regulation (rather than increase) of the ON-to-OFF fim switching rate via temperature-dependent suppression of competing dynamics mediated by recombinase FimE. Our computational analysis further implies that this down-regulation mechanism could be particularly significant inside the host environment, thus potentially contributing further understanding toward the development of novel therapeutic approaches to UPEC-caused UTIs

Guidelines for the use and interpretation of assays for monitoring autophagy (3rd edition)

In 2008 we published the first set of guidelines for standardizing research in autophagy. Since then, research on this topic has continued to accelerate, and many new scientists have entered the field. Our knowledge base and relevant new technologies have also been expanding. Accordingly, it is important to update these guidelines for monitoring autophagy in different organisms. Various reviews have described the range of assays that have been used for this purpose. Nevertheless, there continues to be confusion regarding acceptable methods to measure autophagy, especially in multicellular eukaryotes. For example, a key point that needs to be emphasized is that there is a difference between measurements that monitor the numbers or volume of autophagic elements (e.g., autophagosomes or autolysosomes) at any stage of the autophagic process versus those that measure fl ux through the autophagy pathway (i.e., the complete process including the amount and rate of cargo sequestered and degraded). In particular, a block in macroautophagy that results in autophagosome accumulation must be differentiated from stimuli that increase autophagic activity, defi ned as increased autophagy induction coupled with increased delivery to, and degradation within, lysosomes (inmost higher eukaryotes and some protists such as Dictyostelium ) or the vacuole (in plants and fungi). In other words, it is especially important that investigators new to the fi eld understand that the appearance of more autophagosomes does not necessarily equate with more autophagy. In fact, in many cases, autophagosomes accumulate because of a block in trafficking to lysosomes without a concomitant change in autophagosome biogenesis, whereas an increase in autolysosomes may reflect a reduction in degradative activity. It is worth emphasizing here that lysosomal digestion is a stage of autophagy and evaluating its competence is a crucial part of the evaluation of autophagic flux, or complete autophagy. Here, we present a set of guidelines for the selection and interpretation of methods for use by investigators who aim to examine macroautophagy and related processes, as well as for reviewers who need to provide realistic and reasonable critiques of papers that are focused on these processes. These guidelines are not meant to be a formulaic set of rules, because the appropriate assays depend in part on the question being asked and the system being used. In addition, we emphasize that no individual assay is guaranteed to be the most appropriate one in every situation, and we strongly recommend the use of multiple assays to monitor autophagy. Along these lines, because of the potential for pleiotropic effects due to blocking autophagy through genetic manipulation it is imperative to delete or knock down more than one autophagy-related gene. In addition, some individual Atg proteins, or groups of proteins, are involved in other cellular pathways so not all Atg proteins can be used as a specific marker for an autophagic process. In these guidelines, we consider these various methods of assessing autophagy and what information can, or cannot, be obtained from them. Finally, by discussing the merits and limits of particular autophagy assays, we hope to encourage technical innovation in the field

The Climate Response to Emissions Reductions Due to COVID-19: Initial Results From CovidMIP

Many nations responded to the corona virus disease-2019 (COVID-19) pandemic by restricting travel and other activities during 2020, resulting in temporarily reduced emissions of CO2, other greenhouse gases and ozone and aerosol precursors. We present the initial results from a coordinated Intercomparison, CovidMIP, of Earth system model simulations which assess the impact on climate of these emissions reductions. 12 models performed multiple initial-condition ensembles to produce over 300 simulations spanning both initial condition and model structural uncertainty. We find model consensus on reduced aerosol amounts (particularly over southern and eastern Asia) and associated increases in surface shortwave radiation levels. However, any impact on near-surface temperature or rainfall during 2020–2024 is extremely small and is not detectable in this initial analysis. Regional analyses on a finer scale, and closer attention to extremes (especially linked to changes in atmospheric composition and air quality) are required to test the impact of COVID-19-related emission reductions on near-term climate