Longstanding Illness and Disability: GoWell in the East End: Key equalities issues in the Baseline Survey

In 2012, GoWell East conducted a community survey around the main Glasgow 2014 Commonwealth Games sites in the East End of the city. This survey was planned as part of a longer-term evaluation of the impacts of the Games for the host community in the East End of Glasgow. This ‘Longstanding illness and disability’ report is part of a set of four ‘Equalities’ reports, designed to provide a baseline of differences between various equalities groups prior to the Games, in relation to the Scottish Government’s four legacy themes: Active; Flourishing; Connected; and Sustainable. Three other reports examine equality issues relating to household type (incorporating the issue of age), gender, and ethnic background

BioGUID: resolving, discovering, and minting identifiers for biodiversity informatics

Background: Linking together the data of interest to biodiversity researchers (including specimen records, images, taxonomic names, and DNA sequences) requires services that can mint, resolve, and discover globally unique identifiers (including, but not limited to, DOIs, HTTP URIs, and LSIDs). Results: BioGUID implements a range of services, the core ones being an OpenURL resolver for bibliographic resources, and a LSID resolver. The LSID resolver supports Linked Data-friendly resolution using HTTP 303 redirects and content negotiation. Additional services include journal ISSN look-up, author name matching, and a tool to monitor the status of biodiversity data providers. Conclusion: BioGUID is available at http://bioguid.info/. Source code is available from http://code.google.com/p/bioguid/

The Web SSO Standard OpenID Connect: In-Depth Formal Security Analysis and Security Guidelines

Web-based single sign-on (SSO) services such as Google Sign-In and Log In with Paypal are based on the OpenID Connect protocol. This protocol enables so-called relying parties to delegate user authentication to so-called identity providers. OpenID Connect is one of the newest and most widely deployed single sign-on protocols on the web. Despite its importance, it has not received much attention from security researchers so far, and in particular, has not undergone any rigorous security analysis. In this paper, we carry out the first in-depth security analysis of OpenID Connect. To this end, we use a comprehensive generic model of the web to develop a detailed formal model of OpenID Connect. Based on this model, we then precisely formalize and prove central security properties for OpenID Connect, including authentication, authorization, and session integrity properties. In our modeling of OpenID Connect, we employ security measures in order to avoid attacks on OpenID Connect that have been discovered previously and new attack variants that we document for the first time in this paper. Based on these security measures, we propose security guidelines for implementors of OpenID Connect. Our formal analysis demonstrates that these guidelines are in fact effective and sufficient.Comment: An abridged version appears in CSF 2017. Parts of this work extend the web model presented in arXiv:1411.7210, arXiv:1403.1866, arXiv:1508.01719, and arXiv:1601.0122

Localized shear generates three-dimensional transport

Understanding the mechanisms that control three-dimensional (3D) fluid transport is central to many processes including mixing, chemical reaction and biological activity. Here a novel mechanism for 3D transport is uncovered where fluid particles are kicked between streamlines near a localized shear, which occurs in many flows and materials. This results in 3D transport similar to Resonance Induced Dispersion (RID); however, this new mechanism is more rapid and mutually incompatible with RID. We explore its governing impact with both an abstract 2-action flow and a model fluid flow. We show that transitions from one-dimensional (1D) to two-dimensional (2D) and 2D to 3D transport occur based on the relative magnitudes of streamline jumps in two transverse directions.Comment: Copyright 2017 AIP Publishing. This article may be downloaded for personal use only. Any other use requires prior permission of the author and AIP Publishin

Towards data grids for microarray expression profiles

The UK DTI funded Biomedical Research Informatics Delivered by Grid Enabled Services (BRIDGES) project developed a Grid infrastructure through which research into the genetic causes of hypertension could be supported by scientists within the large Wellcome Trust funded Cardiovascular Functional Genomics project. The BRIDGES project had a focus on developing a compute Grid and a data Grid infrastructure with security at its heart. Building on the work within BRIDGES, the BBSRC funded Grid enabled Microarray Expression Profile Search (GEMEPS) project plans to provide an enhanced data Grid infrastructure to support richer queries needed for the discovery and analysis of microarray data sets, also based upon a fine-grained security infrastructure. This paper outlines the experiences gained within BRIDGES and outlines the status of the GEMEPS project, the open challenges that remain and plans for the future

Data access and integration in the ISPIDER proteomics grid

Grid computing has great potential for supporting the integration of complex, fast changing biological data repositories to enable distributed data analysis. One scenario where Grid computing has such potential is provided by proteomics resources which are rapidly being developed with the emergence of affordable, reliable methods to study the proteome. The protein identifications arising from these methods derive from multiple repositories which need to be integrated to enable uniform access to them. A number of technologies exist which enable these resources to be accessed in a Grid environment, but the independent development of these resources means that significant data integration challenges, such as heterogeneity and schema evolution, have to be met. This paper presents an architecture which supports the combined use of Grid data access (OGSA-DAI), Grid distributed querying (OGSA-DQP) and data integration (AutoMed) software tools to support distributed data analysis. We discuss the application of this architecture for the integration of several autonomous proteomics data resources

Security-oriented data grids for microarray expression profiles

Microarray experiments are one of the key ways in which gene activity can be identified and measured thereby shedding light and understanding for example on biological processes. The BBSRC funded Grid enabled Microarray Expression Profile Search (GEMEPS) project has developed an infrastructure which allows post-genomic life science researchers to ask and answer the following questions: who has undertaken microarray experiments that are in some way similar or relevant to mine; and how similar were these relevant experiments? Given that microarray experiments are expensive to undertake and may possess crucial information for future exploitation (both academically and commercially), scientists are wary of allowing unrestricted access to their data by the wider community until fully exploited locally. A key requirement is thus to have fine grained security that is easy to establish and simple (or ideally transparent) to use across inter-institutional virtual organisations. In this paper we present an enhanced security-oriented data Grid infrastructure that supports the definition of these kinds of queries and the analysis and comparison of microarray experiment results

Biodiversity informatics: the challenge of linking data and the role of shared identifiers

A major challenge facing biodiversity informatics is integrating data stored in widely distributed databases. Initial efforts have relied on taxonomic names as the shared identifier linking records in different databases. However, taxonomic names have limitations as identifiers, being neither stable nor globally unique, and the pace of molecular taxonomic and phylogenetic research means that a lot of information in public sequence databases is not linked to formal taxonomic names. This review explores the use of other identifiers, such as specimen codes and GenBank accession numbers, to link otherwise disconnected facts in different databases. The structure of these links can also be exploited using the PageRank algorithm to rank the results of searches on biodiversity databases. The key to rich integration is a commitment to deploy and reuse globally unique, shared identifiers (such as DOIs and LSIDs), and the implementation of services that link those identifiers