Impulse distributions in dense granular flows: signatures of large-scale spatial structures

In this paper we report the results of simulations of a 2D gravity driven, dissipative granular flow through a hopper system. Measurements of impulse distributions P(I) on the simulated system show flow-velocity-invariant behavior of the distribution for impulses larger than the average impulse . For small impulses, however, P(I) decreases significantly with flow velocity, a phenomenon which can be attributed exclusively to collisions between grains undergoing frequent collisions. Visualizations of the system also show that these frequently colliding particles tend to form increasingly large linear clusters as the flow velocity decreases. A model is proposed for the form of P(I), given distributions of cluster size and velocity, which accurately predicts the observed form of the distribution. Thus the impulse distribution provides some insight into the formation and properties of these ``dynamic'' force chains.Comment: 4 pages, 4 figure

A Hydrologic Carbonate Chemistry Model of Flooded Rice Fields

Many flooded rice fields in Arkansas are irrigated with subterranean waters saturated or supersaturated with respect to calcium carbonate. Deposition of calcium carbonate from these waters largely occurs near field inlets and in flow areas (1). When sufficient amounts of calcium carbonate accumulate, soil pH rises and zinc deficiency occurs in rice seedlings grown on the affected soil (2). The use of zinc fertilizers has provided a short-term solution to the problem (3), but does not provide a water management alternative which would slow, stop or reverse the localized accumulation of calcium carbonate and concomitant soil pH increase

Raising a Flag of Caution in the Race for Community-Based Approaches to Rural Welfare Reform: Early Findings from Texas

President George W. Bush\u27s executive order establishing the White House Office of Faith-Based and Community Initiatives heightens expectations that local organizations will provide superior services to support the objectives of welfare reform and address poverty. However, this expectation raises concerns about the capacity of community-based organizations (CBOs) to effectively implement reform projects in nonmetropolitan areas with limited access to important support services. This paper addresses these questions using early findings from an evaluation of four locally-organized welfare reform projects in rural Texas. We find that the reform projects experienced shortcomings in management, funding, and community involvement that appear to limit overall effectiveness and the capacity of CBOs to sustain the provision of services over time

Leveraging Your Local Resources and National Cyberinfrastructure Resources without Tears

Compute resources for conducting research inhabit a wide range from researchers' personal computers, servers in labs, campus clusters and condos, regional resource-sharing models, and national cyberinfrastructure. Researchers agree that there are not enough resources available on a broad scale, and significant barriers exist for getting analyses moved from smaller- to larger-scale cyberinfrastructure. The XSEDE Campus Bridging program disseminates a several tools that assist researchers and campus IT administrators in reducing barriers to the effective use of national cyberinfrastructure for research. Tools for data management, job submission and steering, best practices for building and administering clusters, and common documentation and training activities all support a flexible environment that allows cyberinfrastructure to be as simple to utilize as a plug-and-play peripheral. In this paper and the accompanying poster we provide an overview of Campus Bridging, including specific challenges and solutions to the problem of making the computerized parts of research easier. We focus particularly on tools that facilitate management of campus computing clusters and integration of such clusters with the national cyberinfrastructure

Disease activity flares and pain flares in an early rheumatoid arthritis inception cohort; characteristics, antecedents and sequelae

© 2019 The Author(s). This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.Background: RA flares are common and disabling. They are described in terms of worsening inflammation but pain and inflammation are often discordant. To inform treatment decisions, we investigated whether inflammatory and pain flares are discrete entities. Methods: People from the Early RA Network (ERAN) cohort were assessed annually up to 11 years after presentation (n = 719, 3703 person-years of follow up). Flare events were defined in 2 different ways that were analysed in parallel; DAS28 or Pain Flares. DAS28 Flares satisfied OMERACT flare criteria of increases in DAS28 since the previous assessment (≥1.2 points if active RA or ≥ 0.6 points if inactive RA). A ≥ 4.8-point worsening of SF36-Bodily Pain score defined Pain Flares. The first documented episode of each of DAS28 and Pain Flare in each person was analysed. Subgroups within DAS28 and Pain Flares were determined using Latent Class Analysis. Clinical course was compared between flare subgroups. Results: DAS28 (45%) and Pain Flares (52%) were each common but usually discordant, with 60% of participants in DAS28 Flare not concurrently in Pain Flare, and 64% of those in Pain Flare not concurrently in DAS28 Flare. Three discrete DAS28 Flare subgroups were identified. One was characterised by increases in tender/swollen joint counts (14.4%), a second by increases in symptoms (13.1%), and a third displayed lower flare severity (72.5%). Two discrete Pain Flare subgroups were identified. One occurred following low disease activity and symptoms (88.6%), and the other occurred on the background of ongoing active disease and pain (11.4%). Despite the observed differences between DAS28 and Pain Flares, each was associated with increased disability which persisted beyond the flare episode. Conclusion: Flares are both common and heterogeneous in people with RA. Furthermore our findings indicate that for some patients there is a discordance between inflammation and pain in flare events. This discrete flare subgroups might reflect different underlying inflammation and pain mechanisms. Treatments addressing different mechanisms might be required to reduce persistent disability after DAS28 and Pain Flares.Peer reviewedFinal Published versio

Validating a Vegetative Filter Strip Performance Model

Vegetative filter strips (VFS) reduce losses of nutrients, solids, and other materials from land area treated with fertilizers and manures. A number of models are available that simulate nutrient and sediment transport in VFS. While VFS effectiveness is considered to depend on lengths of pollutant source area and VFS areas, few published studies have tried to validate these models using variable pollutant source area and VFS area. The objective of this study was to validate an event-based nutrient transport model (Chaubey et al., 1995) that simulates soluble nutrient transport in VFS. This model links three sub-models: modified Green-Ampt infiltration, non-linear kinematic wave overland flow routing, and a nutrient transport component. The nutrient transport component considers infiltration as the only mechanism of pollutant removal from runoff. Data from a field plot experiment were used to validate the model. The model was executed using an uncalibrated runoff component, a calibrated runoff component, and measured runoff. The concentrations of parameters entering the VFS from three different poultry litter application lengths (6.1, 12.2, and 18.3 m) were not significantly different. However, predicted concentrations at subsequent lengths were different for all the three poultry litter application lengths. This finding was consistent with the observed data. Model execution with the uncalibrated runoff component, calibrated runoff component, and measured runoff underpredicted concentrations and mass transport at various locations along the length of the VFS. Underprediction of concentration was judged to be the reason for underprediction of mass transport. The agreement between the observed and predicted concentrations and mass transport, however, improved when runoff predictions from the calibrated runoff component and measured runoff were used. This suggests that accurate prediction of infiltration and runoff is critical for accurate prediction of concentration mass transport. Furthermore, since concentration was underpredicted even when measured runoff was used, this study suggests that the nutrient transport component might be improved, possibly by including nutrient removal mechanisms other than infiltration

Exploring More-Coherent Quantum Annealing

In the quest to reboot computing, quantum annealing (QA) is an interesting candidate for a new capability. While it has not demonstrated an advantage over classical computing on a real-world application, many important regions of the QA design space have yet to be explored. In IARPA's Quantum Enhanced Optimization (QEO) program, we have opened some new lines of inquiry to get to the heart of QA, and are designing testbed superconducting circuits and conducting key experiments. In this paper, we discuss recent experimental progress related to one of the key design dimensions: qubit coherence. Using MIT Lincoln Laboratory's qubit fabrication process and extending recent progress in flux qubits, we are implementing and measuring QA-capable flux qubits. Achieving high coherence in a QA context presents significant new engineering challenges. We report on techniques and preliminary measurement results addressing two of the challenges: crosstalk calibration and qubit readout. This groundwork enables exploration of other promising features and provides a path to understanding the physics and the viability of quantum annealing as a computing resource.Comment: 7 pages, 3 figures. Accepted by the 2018 IEEE International Conference on Rebooting Computing (ICRC

Characterization of DNA binding, transcriptional activation, and regulated nuclear association of recombinant human NFATp

BACKGROUND: NFATp is one member of a family of transcriptional activators whose nuclear accumulation and hence transcriptional activity is regulated in mammalian cells. Human NFATp exists as a phosphoprotein in the cytoplasm of naive T cells. Upon antigen stimulation, NFATp is dephosphorylated, accumulates in nuclei, and functions to regulate transcription of genes including those encoding cytokines. While the properties of the DNA binding domain of NFATp have been investigated in detail, biochemical studies of the transcriptional activation and regulated association with nuclei have remained unexplored because of a lack of full length, purified recombinant NFATp. RESULTS: We developed methods for expressing and purifying full length recombinant human NFATp that has all of the properties known to be associated with native NFATp. The recombinant NFATp binds DNA on its own and cooperatively with AP-1 proteins, activates transcription in vitro, is phosphorylated, can be dephosphorylated by calcineurin, and exhibits regulated association with nuclei in vitro. Importantly, activation by recombinant NFATp in a reconstituted transcription system required regions of the protein outside of the central DNA binding domain. CONCLUSIONS: We conclude that NFATp is a bona fide transcriptional activator. Moreover, the reagents and methods that we developed will facilitate future studies on the mechanisms of transcriptional activation and nuclear accumulation by NFATp, a member of an important family of transcriptional regulatory proteins

Chromhome: a rich internet application for accessing comparative chromosome homology maps.

BACKGROUND: Comparative genomics has become a significant research area in recent years, following the availability of a number of sequenced genomes. The comparison of genomes is of great importance in the analysis of functionally important genome regions. It can also be used to understand the phylogenetic relationships of species and the mechanisms leading to rearrangement of karyotypes during evolution. Many species have been studied at the cytogenetic level by cross species chromosome painting. With the large amount of such information, it has become vital to computerize the data and make them accessible worldwide. Chromhome http://www.chromhome.org is a comprehensive web application that is designed to provide cytogenetic comparisons among species and to fulfil this need. RESULTS: The Chromhome application architecture is multi-tiered with an interactive client layer, business logic and database layers. Enterprise java platform with open source framework OpenLaszlo is used to implement the Rich Internet Chromhome Application. Cross species comparative mapping raw data are collected and the processed information is stored into MySQL Chromhome database. Chromhome Release 1.0 contains 109 homology maps from 51 species. The data cover species from 14 orders and 30 families. The homology map displays all the chromosomes of the compared species as one image, making comparisons among species easier. Inferred data also provides maps of homologous regions that could serve as a guideline for researchers involved in phylogenetic or evolution based studies. CONCLUSION: Chromhome provides a useful resource for comparative genomics, holding graphical homology maps of a wide range of species. It brings together cytogenetic data of many genomes under one roof. Inferred painting can often determine the chromosomal homologous regions between two species, if each has been compared with a common third species. Inferred painting greatly reduces the need to map entire genomes and helps focus only on relevant regions of the chromosomes of the species under study. Future releases of Chromhome will accommodate more species and their respective gene and BAC maps, in addition to chromosome painting data. Chromhome application provides a single-page interface (SPI) with desktop style layout, delivering a better and richer user experience.RIGHTS : This article is licensed under the BioMed Central licence at http://www.biomedcentral.com/about/license which is similar to the 'Creative Commons Attribution Licence'. In brief you may : copy, distribute, and display the work; make derivative works; or make commercial use of the work - under the following conditions: the original author must be given credit; for any reuse or distribution, it must be made clear to others what the license terms of this work are