DIstributed VIRtual System (DIVIRS) Project

The development of Prospero moved from the University of Washington to ISI and several new versions of the software were released from ISI during the contract period. Changes in the first release from ISI included bug fixes and extensions to support the needs of specific users. Among these changes was a new option to directory queries that allows attributes to be returned for all files in a directory together with the directory listing. This change greatly improves the performance of their server and reduces the number of packets sent across their trans-pacific connection to the rest of the internet. Several new access method were added to the Prospero file method. The Prospero Data Access Protocol was designed, to support secure retrieval of data from systems running Prospero

An Investigation Into Alternative Television Viewership Habits Of College Students

Television viewership through the use of digital video recorders (DVRs) and the Internet are affecting viewership statistics. The utilization of the Internet by students to view television programs mandates that future marketing efforts be directed more toward the Internet instead of traditional television advertisements.  Research focused on the television viewing habits of college students, current challenges in television advertising and marketing and the increasing use of DVRs and the Internet are investigated

From network structure to network reorganization: implications for adult neurogenesis

Networks can be dynamical systems that undergo functional and structural reorganization. One example of such a process is adult hippocampal neurogenesis, in which new cells are continuously born and incorporate into the existing network of the dentate gyrus region of the hippocampus. Many of these introduced cells mature and become indistinguishable from established neurons, joining the existing network. Activity in the network environment is known to promote birth, survival and incorporation of new cells. However, after epileptogenic injury, changes to the connectivity structure around the neurogenic niche are known to correlate with aberrant neurogenesis. The possible role of network-level changes in the development of epilepsy is not well understood. In this paper, we use a computational model to investigate how the structural and functional outcomes of network reorganization, driven by addition of new cells during neurogenesis, depend on the original network structure. We find that there is a stable network topology that allows the network to incorporate new neurons in a manner that enhances activity of the persistently active region, but maintains global network properties. In networks having other connectivity structures, new cells can greatly alter the distribution of firing activity and destroy the initial activity patterns. We thus find that new cells are able to provide focused enhancement of network only for small-world networks with sufficient inhibition. Network-level deviations from this topology, such as those caused by epileptogenic injury, can set the network down a path that develops toward pathological dynamics and aberrant structural integration of new cells.Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/85406/1/ph10_4_046008.pd

The role of cell-cell adhesion in wound healing

We present a stochastic model which describes fronts of cells invading a wound. In the model cells can move, proliferate, and experience cell-cell adhesion. We find several qualitatively different regimes of front motion and analyze the transitions between them. Above a critical value of adhesion and for small proliferation large isolated clusters are formed ahead of the front. This is mapped onto the well-known ferromagnetic phase transition in the Ising model. For large adhesion, and larger proliferation the clusters become connected (at some fixed time). For adhesion below the critical value the results are similar to our previous work which neglected adhesion. The results are compared with experiments, and possible directions of future work are proposed.Comment: to appear in Journal of Statistical Physic

Arctic deep water ferromanganese-oxide deposits reflect the unique characteristics of the Arctic Ocean

Author Posting. © American Geophysical Union, 2017. This article is posted here by permission of American Geophysical Union for personal use, not for redistribution. The definitive version was published in Geochemistry, Geophysics, Geosystems 18 (2017): 3771–3800, doi:10.1002/2017GC007186.Little is known about marine mineral deposits in the Arctic Ocean, an ocean dominated by continental shelf and basins semi-closed to deep-water circulation. Here, we present data for ferromanganese crusts and nodules collected from the Amerasia Arctic Ocean in 2008, 2009, and 2012 (HLY0805, HLY0905, and HLY1202). We determined mineral and chemical compositions of the crusts and nodules and the onset of their formation. Water column samples from the GEOTRACES program were analyzed for dissolved and particulate scandium concentrations, an element uniquely enriched in these deposits. The Arctic crusts and nodules are characterized by unique mineral and chemical compositions with atypically high growth rates, detrital contents, Fe/Mn ratios, and low Si/Al ratios, compared to deposits found elsewhere. High detritus reflects erosion of submarine outcrops and North America and Siberia cratons, transport by rivers and glaciers to the sea, and distribution by sea ice, brines, and currents. Uniquely high Fe/Mn ratios are attributed to expansive continental shelves, where diagenetic cycling releases Fe to bottom waters, and density flows transport shelf bottom water to the open Arctic Ocean. Low Mn contents reflect the lack of a mid-water oxygen minimum zone that would act as a reservoir for dissolved Mn. The potential host phases and sources for elements with uniquely high contents are discussed with an emphasis on scandium. Scandium sorption onto Fe oxyhydroxides and Sc-rich detritus account for atypically high scandium contents. The opening of Fram Strait in the Miocene and ventilation of the deep basins initiated Fe-Mn crust growth ∼15 Myr ago.National Science Foundation Grant Numbers: 1434493, 1713677; NSF-OCE Grant Number: 15358542018-05-0

Channel Transmission Loss Studies During Ephemeral Flow Events: ER-5-3 Channel and Cambric Ditch, Nevada Test Site, Nye County, Nevada

Transmission losses along ephemeral channels are an important, yet poorly understood, aspect of rainfall-runoff prediction. Losses occur as flow infiltrates channel bed, banks, and floodplains. Estimating transmission losses in arid environments is difficult because of the variability of surficial geomorphic characteristics and infiltration capacities of soils and near-surface low-permeability geologic layers (e.g., calcrete). Transmission losses in ephemeral channels are nonlinear functions of discharge and time (Lane, 1972), and vary spatially along the channel reach and with soil antecedent moisture conditions (Sharma and Murthy, 1994). Rainfall-runoff models used to estimate peak discharge and runoff volume for flood hazard assessment are not designed specifically for ephemeral channels, where transmission loss can be significant because of the available storage volume in channel soils. Accuracy of the flow routing and rainfall-runoff models is dependent on the transmission loss estimate. Transmission loss rate is the most uncertain parameter in flow routing through ephemeral channels. This research, sponsored by the U.S. Department of Energy, National Nuclear Security Administration (DOE/NNSA) and conducted at the Nevada Test Site (NTS), is designed to improve understanding of the impact of transmission loss on ephemeral flood modeling and compare various methodologies for predicting runoff from rainfall events. Various applications of this research to DOE projects include more site-specific accuracy in runoff prediction; possible reduction in size of flood mitigation structures at the NTS; and a better understanding of expected infiltration from runoff losses into landfill covers. Two channel transmission loss field experiments were performed on the NTS between 2001 and 2003: the first was conducted in the ER-5-3 channel (Miller et al., 2003), between March and June 2001, and the second was conducted in the Cambric Ditch (Mizell et al., 2005), between April and July 2003. Both studies used water discharged from unrelated drilling activities during well development and aquifer pump tests. Discharge measurements at several flumes located along the channels were used to directly measure transmission losses. Flume locations were chosen in relation to geomorphic surface types and ages, vegetative cover and types, subsurface indurated layers (calcrete), channel slopes, etc. Transmission losses were quantified using three different analysis methods. Method 1 uses Lane's Method (Lane, 1983) for estimating flood magnitude in ephemeral channels. Method 2 uses heat as a subsurface tracer for infiltration. Numerical modeling, using HYDRUS-2D (Simunek et al., 1999), a finite-element-based flow and transport code, was applied to estimate infiltration from soil temperature data. Method 3 uses hydraulic gradient and water content in a Darcy's Law approach (Freeze and Cherry, 1979) to calculate one-dimensional flow rates. Heat dissipation and water content data were collected for this analysis

Heterogenous mean-field analysis of a generalized voter-like model on networks

We propose a generalized framework for the study of voter models in complex networks at the the heterogeneous mean-field (HMF) level that (i) yields a unified picture for existing copy/invasion processes and (ii) allows for the introduction of further heterogeneity through degree-selectivity rules. In the context of the HMF approximation, our model is capable of providing straightforward estimates for central quantities such as the exit probability and the consensus/fixation time, based on the statistical properties of the complex network alone. The HMF approach has the advantage of being readily applicable also in those cases in which exact solutions are difficult to work out. Finally, the unified formalism allows one to understand previously proposed voter-like processes as simple limits of the generalized model

Ecological, Economic and Policy Alternatives for Texas Rice Agriculture

An interdisciplinary research team, working in collaboration with and under the auspices of the Institute for Science, Technology and Public Policy in the George Bush School of Government and Public Service at Texas A&M University, conducted a two-year research project entitled Ecological, Economic, and Policy Alternatives for Texas Rice Agriculture. This project was sponsored by the Texas Water Resources Institute (TWRI). Principal investigators were Dr. Letitia T. Alston, Dr. Thomas E. Lacher, Dr. R. Douglas Slack, Dr. Arnold Vedlitz, and Dr. Richard T. Woodward. They were assisted by Dr. James C. Franklin, post-doctoral research associate, and the following research assistants: Nicole Canzoneri, April Ann Torres Conkey, Deborah F. Cowman, Jeanine Harris, April Henry, Elizabeth Iennedy, Michelle Irohn, Ielly Mizell, Jill Nicholson, Kelly Tierce, and Yong-Suhk Wui. The objectives of this research were: (1) to develop a reliable first estimate of the environmental consequences of reduction in rice acreage; (2) to analyze economic consequences of changes in rice acreage that may occur due to the changes in the system of price supports; and (3) to critically review existing policy and explore the kinds of institutional arrangements that might be developed to encourage the preservation of the environmental amenities provided by rice farming

The Ol1mpiad: concordance of behavioural faculties of stage 1 and stage 3 Drosophila larvae

This publication hasn't any creative commons license associated. This article has a Company of Biologists User Licence 1.1. The deposited article version contains attached the supplementary materials within the pdf.Mapping brain function to brain structure is a fundamental task for neuroscience. For such an endeavour, the Drosophila larva is simple enough to be tractable, yet complex enough to be interesting. It features about 10,000 neurons and is capable of various taxes, kineses and Pavlovian conditioning. All its neurons are currently being mapped into a light-microscopical atlas, and Gal4 strains are being generated to experimentally access neurons one at a time. In addition, an electron microscopic reconstruction of its nervous system seems within reach. Notably, this electron microscope-based connectome is being drafted for a stage 1 larva - because stage 1 larvae are much smaller than stage 3 larvae. However, most behaviour analyses have been performed for stage 3 larvae because their larger size makes them easier to handle and observe. It is therefore warranted to either redo the electron microscopic reconstruction for a stage 3 larva or to survey the behavioural faculties of stage 1 larvae. We provide the latter. In a community-based approach we called the Ol1mpiad, we probed stage 1 Drosophila larvae for free locomotion, feeding, responsiveness to substrate vibration, gentle and nociceptive touch, burrowing, olfactory preference and thermotaxis, light avoidance, gustatory choice of various tastants plus odour-taste associative learning, as well as light/dark-electric shock associative learning. Quantitatively, stage 1 larvae show lower scores in most tasks, arguably because of their smaller size and lower speed. Qualitatively, however, stage 1 larvae perform strikingly similar to stage 3 larvae in almost all cases. These results bolster confidence in mapping brain structure and behaviour across developmental stages.Fundação para a Ciência e a Tecnologia grants: (SFRH/BPD/75993/2011EXPL/BEX-BID/0497/2013); Cluster of Excellence Cells in Motion; CiM International Max Planck research school; Spanish Ministry of Economy and Competitiveness; ‘Centro de Excelencia Severo Ochoa 2013-2017’ grant: (SEV-2012-0208); CERCA Programme/Generalitat de Catalunya; the ‘la Caixa’ International PhD Programme; Spanish Ministry of Science and Innovation grant: (BFU2011-26208); Wissenschaftsgemeinschaft Gottfried Wilhelm Leibniz; State of Sachsen-Anhalt; Center for Behavioral Brain Sciences Magdeburg; Otto von Guericke Universität Magdeburg; Deutsche Forschungsgemeinschaft grants: (CRC 779 Motivated behaviour: B11; GE1091/4-1, SPP 1926, Next generation optogenetics, SO1337/2-1, CRC 779 Motivated behaviour: B15; YA272/2-1, PA 787/7-1, (TH1584/1-1, TH1584/3-1); European Commission grant: (FP7-ICT project Miniature Insect Model for Active Learning MINIMAL); Howard Hughes Medical Institute; European Research Council grant: (ERC-2012-StG 309832-PhotoNaviNet); Swiss National Science Foundation grant: (31003A_169993); Landesforschungsförderung Hamburg grant: (LFF-FV27); Wissenschaftsgemeinschaft Gottfried Wilhelm Leibniz; State of Sachsen-Anhalt; Center for Behavioral Brain Sciences Magdeburg; Cluster of Excellence ImmunoSensation; Baden-Württemberg Stiftung; Zukunftskolleg of the University of Konstanz.info:eu-repo/semantics/publishedVersio

Large-Scale Assessment of the Zebrafish Embryo as a Possible Predictive Model in Toxicity Testing

Background: In the drug discovery pipeline, safety pharmacology is a major issue. The zebrafish has been proposed as a model that can bridge the gap in this field between cell assays (which are cost-effective, but low in data content) and rodent assays (which are high in data content, but less cost-efficient). However, zebrafish assays are only likely to be useful if they can be shown to have high predictive power. We examined this issue by assaying 60 water-soluble compounds representing a range of chemical classes and toxicological mechanisms. Methodology/Principal Findings: Over 20,000 wild-type zebrafish embryos (including controls) were cultured individually in defined buffer in 96-well plates. Embryos were exposed for a 96 hour period starting at 24 hours post fertilization. A logarithmic concentration series was used for range-finding, followed by a narrower geometric series for LC 50 determination. Zebrafish embryo LC50 (log mmol/L), and published data on rodent LD50 (log mmol/kg), were found to be strongly correlated (using Kendall’s rank correlation tau and Pearson’s product-moment correlation). The slope of the regression line for the full set of compounds was 0.73403. However, we found that the slope was strongly influenced by compound class. Thus, while most compounds had a similar toxicity level in both species, some compounds were markedly more toxic in zebrafish than in rodents, or vice versa. Conclusions: For the substances examined here, in aggregate, the zebrafish embryo model has good predictivity for toxicit