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Search Results: 1 - 10 of 462868 matches for " Matt A Rudisill "
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Proteomics reveals a core molecular response of Pseudomonas putida F1 to acute chromate challenge
Dorothea K Thompson, Karuna Chourey, Gene S Wickham, Stephanie B Thieman, Nathan C VerBerkmoes, Bing Zhang, Andrea T McCarthy, Matt A Rudisill, Manesh Shah, Robert L Hettich
BMC Genomics , 2010, DOI: 10.1186/1471-2164-11-311
Abstract: Growth studies demonstrated that F1 sensitivity to Cr(VI) was impacted substantially by nutrient conditions, with a carbon-source-dependent hierarchy (lactate > glucose >> acetate) observed in minimal media. Two-dimensional HPLC-MS/MS was employed to identify differential proteome profiles generated in response to 1 mM chromate under LB and M9L growth conditions. The immediate response to Cr(VI) in LB-grown cells was up-regulation of proteins involved in inorganic ion transport, secondary metabolite biosynthesis and catabolism, and amino acid metabolism. By contrast, the chromate-responsive proteome derived under defined minimal growth conditions was characterized predominantly by up-regulated proteins related to cell envelope biogenesis, inorganic ion transport, and motility. TonB-dependent siderophore receptors involved in ferric iron acquisition and amino acid adenylation domains characterized up-regulated systems under LB-Cr(VI) conditions, while DNA repair proteins and systems scavenging sulfur from alternative sources (e.g., aliphatic sulfonates) tended to predominate the up-regulated proteome profile obtained under M9L-Cr(VI) conditions.Comparative analysis indicated that the core molecular response to chromate, irrespective of the nutritional conditions tested, comprised seven up-regulated proteins belonging to six different functional categories including transcription, inorganic ion transport/metabolism, and amino acid transport/metabolism. These proteins might potentially serve as indicators of chromate stress in natural microbial communities.Pseudomonas putida is a ubiquitous gram-negative, saprophytic bacterium belonging to the gamma class of the Proteobacteria. Endowed with a remarkable environmental adaptability, P. putida strain F1 [1], for example, has been investigated most extensively as a model organism for the microbial degradation of such xenobiotic aromatic compounds as toluene, benzene, and ethylbenzene [2]. Considerably less scientific focus
Modus vivendi, overlapping consensus and stability
Rudisill,Jhon;
Discusiones Filosóficas , 2010,
Abstract: in this paper, i show how the political theory of a non-liberal giant of the western philosophy canon, hobbes, can be interpreted as having a commitment to some form of neutrality. in recognizing the role neutrality plays in hobbes's thought we come to see that a neutrality requirement is not exclusive to liberalism. beyond this, however, i intend to show that consideration of hobbes in this context reveals certain helpful points of comparison with rawls's later work that raise concerns about the viability of his political liberalism. i argue that rawls's political liberalism, while not a modus vivendi solution to political justification, is ill suited for the securing stability.
Infraspinatus/Teres Minor Transfer Biceps In Situ Tenodesis Procedure: Initial Results of a Technique for Massive Cuff Tears
Matt D. A. Fletcher
ISRN Orthopedics , 2013, DOI: 10.1155/2013/646598
Abstract: Massive rotator cuff tears may not be primarily repairable with salvage options not necessarily providing acceptable results. Extrinsic tendon transfer is a significant undertaking with prolonged rehabilitation and variable outcome. A novel technique for the reconstruction of massive tears, not amenable to primary repair, by performing a transfer of the intrinsic posterior rotator cuff onto an intact, tenodesed long head of biceps tendon acting as a scaffold for the intrinsic transfer is described. The clinical results at short to medium term in 17 initial patients are presented. Encouraging results from this study suggest that this is a viable option for the management of massive rotator cuff tears with an intact posterior cuff with results equal or superior to other reconstructive techniques. 1. Introduction Rotator cuff pathology is a common problem, with tears causing a significant amount of time off work, pain, and loss of function. Tears can be graded according to a number of different systems, massive tears generally being considered the most difficult for surgical management. In the case of a massive tear with a retracted, deficient, or grossly degenerate tendon margin, direct primary repair is not possible. Present reconstructive options include medialisation of the supraspinatus footprint, margin convergence, subscapularis transfer, and extrinsic latissimus dorsi/teres major transfer. A novel technique for the primary reconstruction of a massive, retracted, and irreparable tear is described. This utilizes the infraspinatus and teres minor muscles, as well as an intact long head of biceps to create a new, postero-superior force couple with a more anatomic force transmission alignment of the transferred tendon compared to an extrinsic transfer. The transferred tendon acts as a humeral head depressor as well as force couple to facilitate return to normal shoulder kinematics. The procedure has the advantage of being performed as a primary operation and is easily accomplished in the deck-chair position. Recovery appears similar to simple rotator cuff repair, and postoperative pain is minimal. 2. Methods In deck-chair position, initial glenohumeral and subacromial arthroscopy is performed. Arthroscopic subacromial decompression is completed, and the cuff is inspected for a posterior cuff margin, and the presence of the long head of biceps. If amenable to reconstruction, an open approach to the shoulder is made. The presence of an irreparable rotator cuff tear is confirmed. The infraspinatus tendon is elevated by sharp dissection from the posterior
Synthetic Direct Impact Light Curves of the Ultracompact AM CVn Binary Systems V407 Vul and HM Cnc
Matt A. Wood
Physics , 2009, DOI: 10.1111/j.1365-2966.2009.14520.x
Abstract: The interacting binary white dwarf (AM CVn) systems HM Cnc and V407 have orbital periods of 5.4 min and 9.5 min, respectively. The two systems are characterized by an "on/off" behaviour in the X-ray light curve, and optical light curves that are nearly sinusoidal and which lead the X-ray light curves in phase by about 0.2 in both systems. Of the models that have been proposed to explain the observations, the one that seems to require the least fine tuning is the direct impact model of Marsh & Steeghs (2002). In this model, the white dwarf primary is large enough relative to the semi-major axis that the accretion stream impacts the surface of the primary white dwarf directly without forming an accretion disc. Marsh & Steeghs proposed that in this situation there could be a flow set up around the equator with a decreasing surface temperature the further one measured from the impact point. In this study, we estimate the light curves that might result from such a temperature distribution, and find them to be reasonable approximations to the observations. One unexpected result is that two distinct X-ray spots must exist to match the shape of the X-ray light curves.
An Analytic Solution for a Vasicek Interest Rate Convertible Bond Model
A. S. Deakin,Matt Davison
Journal of Applied Mathematics , 2010, DOI: 10.1155/2010/263451
Abstract: This paper provides the analytic solution to the partial differential equation for the value of a convertible bond. The equation assumes a Vasicek model for the interest rate and a geometric Brownian motion model for the stock price. The solution is obtained using integral transforms.
Polyhedral Phenylacetylenes: The Interplay of Aromaticity and Antiaromaticity in Convex Graphyne Substructures
Daniel Sebastiani,Matt A. Parker
Symmetry , 2009, DOI: 10.3390/sym1020226
Abstract: We have studied a series of bridged phenylacetylene macrocycles with topologies based on Platonic and Archimedean polyhedra, using density functional calculations to determine both their molecular structure and their electronic response to external magnetic fields (NICS maps). We are able to elucidate the interplay of aromaticity and anti-aromaticity as a function of structural parameters, in particular the symmetry properties of the intramolecular bond connectivities, in these compounds.
Environmental Statistics and Optimal Regulation
David A. Sivak ,Matt Thomson
PLOS Computational Biology , 2014, DOI: doi/10.1371/journal.pcbi.1003826
Abstract: Any organism is embedded in an environment that changes over time. The timescale for and statistics of environmental change, the precision with which the organism can detect its environment, and the costs and benefits of particular protein expression levels all will affect the suitability of different strategies–such as constitutive expression or graded response–for regulating protein levels in response to environmental inputs. We propose a general framework–here specifically applied to the enzymatic regulation of metabolism in response to changing concentrations of a basic nutrient–to predict the optimal regulatory strategy given the statistics of fluctuations in the environment and measurement apparatus, respectively, and the costs associated with enzyme production. We use this framework to address three fundamental questions: (i) when a cell should prefer thresholding to a graded response; (ii) when there is a fitness advantage to implementing a Bayesian decision rule; and (iii) when retaining memory of the past provides a selective advantage. We specifically find that: (i) relative convexity of enzyme expression cost and benefit influences the fitness of thresholding or graded responses; (ii) intermediate levels of measurement uncertainty call for a sophisticated Bayesian decision rule; and (iii) in dynamic contexts, intermediate levels of uncertainty call for retaining memory of the past. Statistical properties of the environment, such as variability and correlation times, set optimal biochemical parameters, such as thresholds and decay rates in signaling pathways. Our framework provides a theoretical basis for interpreting molecular signal processing algorithms and a classification scheme that organizes known regulatory strategies and may help conceptualize heretofore unknown ones.
The Stability of Planets in the Alpha Centauri system
Paul A. Wiegert,Matt Holman
Physics , 1996, DOI: 10.1086/118360
Abstract: This paper investigates the long-term orbital stability of small bodies near the central binary of the Alpha Centauri system. Test particles on circular orbits are integrated in the field of this binary for 32000 binary periods or approximately 2.5 Myr. In the region exterior to the binary, particles with semi-major axes less than roughly three times the binary's semi-major axis are unstable. Inside the binary, particles are unstable if further than 0.2 binary semimajor axes from the primary, with stablility closer in a strong function of inclination: orbits inclined near 90 degrees are unstable in as close as 0.01 binary semimajor axes from either star.
Approximation Algorithms for Dominating Set in Disk Graphs
Matt Gibson,Imran A. Pirwani
Computer Science , 2010,
Abstract: We consider the problem of finding a lowest cost dominating set in a given disk graph containing $n$ disks. The problem has been extensively studied on subclasses of disk graphs, yet the best known approximation for disk graphs has remained $O(\log n)$ -- a bound that is asymptotically no better than the general case. We improve the status quo in two ways: for the unweighted case, we show how to obtain a PTAS using the framework recently proposed (independently)by Mustafa and Ray [SoCG 09] and by Chan and Har-Peled [SoCG 09]; for the weighted case where each input disk has an associated rational weight with the objective of finding a minimum cost dominating set, we give a randomized algorithm that obtains a dominating set whose weight is within a factor $2^{O(\log^* n)}$ of a minimum cost solution, with high probability -- the technique follows the framework proposed recently by Varadarajan [STOC 10].
Environmental statistics and optimal regulation
David A. Sivak,Matt Thomson
Quantitative Biology , 2014, DOI: 10.1016/j.bpj.2014.11.1999
Abstract: Any organism is embedded in an environment that changes over time. The timescale for and statistics of environmental change, the precision with which the organism can detect its environment, and the costs and benefits of particular protein expression levels all will affect the suitability of different strategies-such as constitutive expression or graded response-for regulating protein levels in response to environmental inputs. We propose a general framework-here specifically applied to the enzymatic regulation of metabolism in response to changing concentrations of a basic nutrient-to predict the optimal regulatory strategy given the statistics of fluctuations in the environment and measurement apparatus, respectively, and the costs associated with enzyme production. We use this framework to address three fundamental questions: (i) when a cell should prefer thresholding to a graded response; (ii) when there is a fitness advantage to implementing a Bayesian decision rule; and (iii) when retaining memory of the past provides a selective advantage. We specifically find that: (i) relative convexity of enzyme expression cost and benefit influences the fitness of thresholding or graded responses; (ii) intermediate levels of measurement uncertainty call for a sophisticated Bayesian decision rule; and (iii) in dynamic contexts, intermediate levels of uncertainty call for retaining memory of the past. Statistical properties of the environment, such as variability and correlation times, set optimal biochemical parameters, such as thresholds and decay rates in signaling pathways. Our framework provides a theoretical basis for interpreting molecular signal processing algorithms and a classification scheme that organizes known regulatory strategies and may help conceptualize heretofore unknown ones.
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