Gateway Hosting at Indiana University

In: Proceedings of the TeraGrid 2009 Conference, 22-25 June, Arlington, VA.The gateway hosting service at Indiana University provides science gateways and portals with hosting resources to facilitate the use of computation resources and storage within the TeraGrid. This service is designed with high availability in mind and is deployed across the Indianapolis and Bloomington campuses with redundant network, power, and storage. The service uses OpenVZ to give each gateway or portal its own virtual environment while making the most efficient use of the hardware and administrative resources. OpenVZ’s user beancounter quota system and fair-share scheduling for processes and I/O allows fair distribution of resource between virtual machines while allowing full utilization of the hardware. The ability to do live migration allows kernel updates without service interruption. Indiana University’s research network provides multiple low latency high bandwidth connections between campuses, other TeraGrid resource providers, and the Internet at large. The service is in use by a variety of projects such as FlyBase and TeraGrid Information Services and, since the service was put into production in August 2008, there have been 5.37 hours of down time

Technical Report: Distributed Parallel Computing Using Windows Desktop Systems

See also: http://sbml.org/Main_PageLike many large institutions, Indiana University has thousands of desktop computers devoted primarily to running office productivity applications on the Windows operating system, tasks which are necessary but that do not use the computers’ full capacity. This is a resource worth pursuing. However, the individual desktop systems do not offer enough processing power for a long enough period of time to complete large scientific computing applications. Some form of distributed, parallel programming is required, to make them worth the chase. They must be instantly available to their primary users, so they are available only intermittently. This has been a serious stumbling block: currently available communications libraries for distributed computing do not support such a dynamic communications world well. This paper introduces Simple Message Broker Library (SMBL), which provides the flexibility needed to take advantage of such ephemeral resources

Overview of the Satellite Networked Open Ground Stations (SatNOGS) Project

The SatNOGS, or Satellite Network Open Ground Stations, project promotes and supports free and open space applications. It seeks to address the problem of connecting many satellite users/observers to many ground station operators. Modern Open Source software, web, and hardware techniques are used in implementing the Network, Database, Client, and Ground Station sub-projects. Modularity in all the systems promotes the dual-use of ground stations by not interfering with local operation while utilizing the great amount of time a civilian, non-commercial ground station would otherwise sit idle

Parasite-stress promotes in-group assortative sociality: the cases of strong family ties and heightened religiosity

Throughout the world people differ in the magnitude with which they value strong family ties or heightened religiosity. We propose that this cross-cultural variation is a result of a contingent psychological adaptation that facilitates in-group assortative sociality in the face of high levels of parasite-stress while devaluing in-group assortative sociality in areas with low levels of parasite-stress. This is because in-group assortative sociality is more important for the avoidance of infection from novel parasites and for the management of infection in regions with high levels of parasite-stress compared with regions of low infectious disease stress. We examined this hypothesis by testing the predictions that there would be a positive association between parasite-stress and strength of family ties or religiosity. We conducted this study by comparing among nations and among states in the United States of America. We found for both the international and the interstate analyses that in-group assortative sociality was positively associated with parasite-stress. This was true when controlling for potentially confounding factors such as human freedom and economic development. The findings support the parasite-stress theory of sociality, that is, the proposal that parasite-stress is central to the evolution of social life in humans and other animals

Small extracellular vesicle-mediated ITGB6 siRNA delivery downregulates the αVβ6 integrin and inhibits adhesion and migration of recipient prostate cancer cells

The αVβ6 integrin, an epithelial-specific cell surface receptor absent in normal prostate and expressed during prostate cancer (PrCa) progression, is a therapeutic target in many cancers. Here, we report that transcript levels of ITGB6 (encoding the β6 integrin subunit) are significantly increased in metastatic castrate-resistant androgen receptor-negative prostate tumors compared to androgen receptor-positive prostate tumors. In addition, the αVβ6 integrin protein levels are significantly elevated in androgen receptor-negative PrCa patient derived xenografts (PDXs) compared to androgen receptor-positive PDXs. In vitro, the androgen receptor-negative PrCa cells express high levels of the αVβ6 integrin compared to androgen receptor-positive PrCa cells. Additionally, expression of androgen receptor (wild type or variant 7) in androgen receptor-negative PrCa cells downregulates the expression of the β6 but not αV subunit compared to control cells. We demonstrate an efficient strategy to therapeutically target the αVβ6 integrin during PrCa progression by using short interfering RNA (siRNA) loaded into PrCa cell-derived small extracellular vesicles (sEVs). We first demonstrate that fluorescently-labeled siRNAs can be efficiently loaded into PrCa cell-derived sEVs by electroporation. By confocal microscopy, we show efficient internalization of these siRNA-loaded sEVs into PrCa cells. We show that sEV-mediated delivery of ITGB6-targeting siRNAs into PC3 cells specifically downregulates expression of the β6 subunit. Furthermore, treatment with sEVs encapsulating ITGB6 siRNA significantly reduces cell adhesion and migration of PrCa cells on an αVβ6-specific substrate, LAP-TGFβ1. Our results demonstrate an approach for specific targeting of the αVβ6 integrin in PrCa cells using sEVs encapsulating ITGB6-specific siRNAs

An Updated Overview of the Satellite Networked Open Ground Stations (SatNOGS) Project

An overview of the SatNOGS project, a network of satellite ground stations around the world, optimized for modularity, built from readily available and affordable tools and resources. The rate of Low Earth Orbit (LEO) satellite launches increases with the participation of old and new entities. In this growing environment, SatNOGS provides a scalable and modular solution to track, identify, receive telemetry from, monitor, and assist operators in command/control of satellites. The SatNOGS global community, dedicated to its free and open-source values, develops hardware ground station designs (antennas, rotators, electronics), software for SDR-based communications, satellite scheduling and mission monitoring platforms. SatNOGS continuously develops and improves its infrastructure to allow observers to use this networked ground segment and remotely operate SatNOGS ground stations around the world. It also provides an easy way to store, access and view increasingly received satellites data, by supporting VHF, UHF, L and S bands

Targeting the αvβ3/NGR2 Pathway in Neuroendocrine Prostate Cancer

Highly aggressive, metastatic, neuroendocrine prostate cancer, which typically develops from prostate cancer cells acquiring resistance to androgen deprivation therapy, is associated with limited treatment options and hence poor prognosis. We have previously demonstrated that the αVβ3 integrin is over-expressed in neuroendocrine prostate cancer. We now show that LM609, a monoclonal antibody that specifically targets the human αVβ3 integrin, hinders the growth of neuroendocrine prostate cancer patient-derived xenografts in vivo. Our group has recently identified a novel αVβ3 integrin binding partner, NgR2, responsible for regulating the expression of neuroendocrine markers and for inducing neuroendocrine differentiation in prostate cancer cells. Through in vitro functional assays, we here demonstrate that NgR2 is crucial in promoting cell adhesion to αVβ3 ligands. Moreover, we describe for the first time co-fractionation of αVβ3 integrin and NgR2 in small extracellular vesicles derived from metastatic prostate cancer patients\u27 plasma. These prostate cancer patient-derived small extracellular vesicles have a functional impact on human monocytes, increasing their adhesion to fibronectin. The monocytes incubated with small extracellular vesicles do not show an associated change in conventional polarization marker expression and appear to be in an early stage that may be defined as adhesion competent . Overall, these findings allow us to better understand integrin-directed signaling and cell-cell communication during cancer progression. Furthermore, our results pave the way for new diagnostic and therapeutic perspectives for patients affected by neuroendocrine prostate cancer

The NOGO Receptor NgR2, A Novel αVβ3 Integrin Effector, Induces Neuroendocrine Differentiation in Prostate Cancer

Androgen deprivation therapies aimed to target prostate cancer (PrCa) are only partially successful given the occurrence of neuroendocrine PrCa (NEPrCa), a highly aggressive and highly metastatic form of PrCa, for which there is no effective therapeutic approach. Our group has demonstrated that while absent in prostate adenocarcinoma, the αVβ3 integrin expression is increased during PrCa progression toward NEPrCa. Here, we show a novel pathway activated by αVβ3 that promotes NE differentiation (NED). This novel pathway requires the expression of a GPI-linked surface molecule, NgR2, also known as Nogo-66 receptor homolog 1. We show here that NgR2 is upregulated by αVβ3, to which it associates; we also show that it promotes NED and anchorage-independent growth, as well as a motile phenotype of PrCa cells. Given our observations that high levels of αVβ3 and, as shown here, of NgR2 are detected in human and mouse NEPrCa, our findings appear to be highly relevant to this aggressive and metastatic subtype of PrCa. This study is novel because NgR2 role has only minimally been investigated in cancer and has instead predominantly been analyzed in neurons. These data thus pave new avenues toward a comprehensive mechanistic understanding of integrin-directed signaling during PrCa progression toward a NE phenotype