TidalSim Senior Project Report

Throughout the course of this project, our team helped the Cal Poly Biological Sciences department refine an intertidal zone simulator. The aim of this device is to allow any marine biologist to easily simulate a vast range of tidal zones in order to test animal behaviors within these zones. Another goal of this project is to make each simulation tank independent from the others by using a single microcontroller to handle all inputs and outputs of the system as well as logging all relevant data. The current system is set up so that a separate microcontroller handles dissolved oxygen and food dosing for all four tanks. One program controller per tank will make experiment setup more straightforward and thus was main goal of the project. Another goal was to make experiment setup data (tide transitions, temps, DO etc) input all in one file in Excel. The current system has some experiment data input through Excel and some that needs to be compiled in the code. This forces the scientists that use the simulator to be familiar with the development software and also introduces the risk of bugs being created accidentally. Our process to reach these goals and objectives has been documented in order to replicate the system in the future

11th Intelligent Systems for Molecular Biology 2003 (ISMB 2003)

This report profiles the keynote talks given at ISMB03 in Brisbane, Australia by Ron Shamir, David Haussler, John Mattick, Yoshihide Hayashizaki, Sydney Brenner, the Overton Prize winner, Jim Kent, and the ISCB Senior Accomplishment Awardee, David Sankov

Efficiency convergence properties of Indonesian banks 1992-2007

This paper examines the convergence properties of cost efficiency for Indonesian banks for the period 1992-2007. It employs the Simar and Wilson’s (2007) two stage semi-parametric double bootstrap DEA procedure to estimate cost efficiency. Using panel data estimation, the paper examines β-convergence and σ-convergence, to test the speed at which Indonesian banks are converging, towards the best practice and country average. We find evidence that in general the post-crisis structural reform process improved the average level of efficiency and improved the distribution of efficiency across banks significantly. The Asian financial crisis and the structural reform had the effect of slowing the adjustment speed of bank efficiency

Parasite motility is critical for virulence of African trypanosomes.

African trypanosomes, Trypanosoma brucei spp., are lethal pathogens that cause substantial human suffering and limit economic development in some of the world's most impoverished regions. The name Trypanosoma ("auger cell") derives from the parasite's distinctive motility, which is driven by a single flagellum. However, despite decades of study, a requirement for trypanosome motility in mammalian host infection has not been established. LC1 is a conserved dynein subunit required for flagellar motility. Prior studies with a conditional RNAi-based LC1 mutant, RNAi-K/R, revealed that parasites with defective motility could infect mice. However, RNAi-K/R retained residual expression of wild-type LC1 and residual motility, thus precluding definitive interpretation. To overcome these limitations, here we generate constitutive mutants in which both LC1 alleles are replaced with mutant versions. These double knock-in mutants show reduced motility compared to RNAi-K/R and are viable in culture, but are unable to maintain bloodstream infection in mice. The virulence defect is independent of infection route but dependent on an intact host immune system. By comparing different mutants, we also reveal a critical dependence on the LC1 N-terminus for motility and virulence. Our findings demonstrate that trypanosome motility is critical for establishment and maintenance of bloodstream infection, implicating dynein-dependent flagellar motility as a potential drug target

Magnetoresistance due to Domain Walls in Micron Scale Fe Wires with Stripe Domains

The magnetoresistance (MR) associated with domain boundaries has been investigated in microfabricated bcc Fe (0.65 to 20 $\mu$m linewidth) wires with controlled stripe domains. Domain configurations have been characterized using magnetic force microscopy. MR measurements as a function of field angle, temperature and domain configuration are used to estimate MR contributions due to resistivity anisotropy and domain walls. Evidence is presented that domain boundaries enhance the conductivity in such microstructures over a broad range of temperatures (1.5 K to 80 K).Comment: 8 pages, 3 postscript figures, and 2 jpg images (Fig 1 and 2) to appear in IEEE Transactions on Magnetics (Fall 1998

The angel-halo effect: How increases in corporate social responsibility and irresponsibility relate to firm performance

Purpose – To examine how increases in corporate social responsibility (CSR) and corporate social irresponsibility (CSiR) relate to firm performance. Further, we investigate how increases in CSR (CSiR) while CSiR (CSR) is present relate to three measures of firm performance: profitability, management efficiency, and market valuation. Design/methodology/approach - Using over 10,000 observations from 2009-2013 and combined data from Sustainalytics and Compustat we examine how increases in either CSR or CSiR relate to firm performance. Findings - We find that increased CSR significantly relates to increased firm performance in all three measures, and that increased CSiR significantly relates to decreased profitability only. Furthermore, increased CSR when CSiR is present relates to increased efficiency and market valuation. Lastly, increased CSiR when CSR is present relates to increased profitability and efficiency. Our results suggest CSR dominates the relationship to firm performance, as it is positively related to all three measures of firm performance, and when CSR and CSiR exist simultaneously, CSR has a dominant positive effect. Research limitations/implications – Our sample consists of U.S. firms only from 2009-2013, the generalizability of our results to other countries and time periods is unknown. Practical implications – Our results demonstrating differing effects based on the measure of firm performance suggest that managers should be specific with which measures are used to gauge the impact of CSR and CSiR. In addition, managers would be wise to invest in CSR as our results suggest that they can improve profitability, efficiency and market value. Even further, the empirically identified angel-halo effect suggests that investments in CSR may counter any potential negative effects from CSiR. Lastly, the latter results suggest that firms can “get away” with some degree of CSiR when CSR is present. Originality/value - By examining changing levels of CSR and CSiR independently and conjunctly across various measures of firm performance, we found a dominating role for CSR, which we label the angel-halo effect. Keywords - Corporate social responsibility, Corporate social irresponsibility, Financial and firm performance, Angel-halo effect, Devil-horn effect. Paper type - Empirica

Local environment of Nitrogen in GaN{y}As{1-y} epilayers on GaAs (001) studied using X-ray absorption near edge spectroscopy

X-ray absorption near-edge spectroscopy (XANES) is used to study the N environment in bulk GaN and in GaN{y}As{1-y} epilayers on GaAs (001), for y \~5%. Density-functional optimized structures were used to predict XANES via multiple-scattering theory. We obtain striking agreement for pure GaN. An alloy model with nitrogen pairs on Ga accurately predicts the threshold energy, the width of the XANES ``white line'', and features above threshold, for the given X-ray polarization. The presence of N-pairs may point to a role for molecular N_2 in epitaxial growth kinetics.Comment: Four pages (PRL style) with two figure

X-efficiency versus rent seeking in Chinese banks: 1997-2006

This study demarcates cost-inefficiency in Chinese banks into X-inefficiency and rent-seeking-inefficiency. A protected banking market not only encourages weak management and X-inefficiency but also public ownership and state directed lending encourages moral hazard and bureaucratic rent seeking. This paper uses bootstrap non-parametric techniques to estimate measures of X-inefficiency and rent-seeking inefficiency for the 4 state owned banks and 10 joint-stock banks over the period 1997-2006. The paper adjusts for the quality of loans by treating NPLs as a negative output. The paper shows that Chinese banks have reduced cost inefficiency and reduced X-inefficiency at a faster rate than rent-seeking inefficiency