Content repositories and social networking : can there be synergies?

This paper details the novel application of Web 2.0 concepts to current services offered to Social Scientists by the ReDReSS project, carried out by the Centre for e-Science at Lancaster University. We detail plans to introduce Social Bookmarking and Social Networking concepts into the repository software developed by the project. This will result in the improved discovery of e-Science concepts and training to Social Scientists and allow for much improved linking of resources in the repository. We describe plans that use Social Networking and Social Bookmarking concepts, using Open Standards, which will promote collaboration between researchers by using information gathered on user’s use of the repository and information about the user. This will spark collaborations that would not normally be possible in the academic repository context

Prevalence of pyrazinamide resistance across the spectrum of drug resistant phenotypes of Mycobacterium tuberculosis

Pyrazinamide resistance is largely unknown in the spectrum of drug resistant phenotypes. We summarize data on PZA resistance in clinical isolates from South Africa. PZA DST should be performed when considering its inclusion in treatment of patients with rifampicin-resistant TB or MDR-TB

Assessing responsible innovation training

There is broad agreement that one important aspect of responsible innovation (RI) is to provide training on its principles and practices to current and future researchers and innovators, notably including doctoral students. Much less agreement can be observed concerning the question of what this training should consist of, how it should be delivered and how it could be assessed. The increasing institutional embedding of RI leads to calls for the alignment of RI training with training in other subjects. One can therefore observe a push towards the official assessment of RI training, for example in the recent call for proposals for centres for doctoral training by UK Research and Innovation. This editorial article takes its point of departure from the recognition that the RI community will need to react to the call for assessment of RI training. It provides an overview of the background and open questions around RI training and assessment as a background of examples of RI training assessment at doctoral level. There is unlikely to be one right way of assessing RI training across institutions and disciplines, but we expect that the examples provided in this article can help RI scholars and practitioners orient their training and its assessment in ways that are academically viable as well as supportive of the overall aims of RI

Outcomes, infectiousness, and transmission dynamics of patients with extensively drug-resistant tuberculosis and home-discharged patients with programmatically incurable tuberculosis: a prospective cohort study.

BACKGROUND: The emergence of programmatically incurable tuberculosis threatens to destabilise control efforts. The aim of this study was to collect prospective patient-level data to inform treatment and containment strategies. METHODS: In a prospective cohort study, 273 South African patients with extensively drug-resistant tuberculosis, or resistance beyond extensively drug-resistant tuberculosis, were followed up over a period of 6 years. Transmission dynamics, infectiousness, and drug susceptibility were analysed in a subset of patients from the Western Cape using whole-genome sequencing (WGS; n=149), a cough aerosol sampling system (CASS; n=26), and phenotypic testing for 18 drugs (n=179). FINDINGS: Between Oct 1, 2008, and Oct 31, 2012, we enrolled and followed up 273 patients for a median of 20·3 months (IQR 9·6-27·8). 203 (74%) had programmatically incurable tuberculosis and unfavourable outcomes (treatment failure, relapse, default, or death despite treatment with a regimen based on capreomycin, aminosalicylic acid, or both). 172 (63%) patients were discharged home, of whom 104 (60%) had an unfavourable outcome. 54 (31%) home-discharged patients had failed treatment, with a median time to death after discharge of 9·9 months (IQR 4·2-17·4). 35 (20%) home-discharged cases were smear-positive at discharge. Using CASS, six (23%) of 26 home-discharged cases with data available expectorated infectious culture-positive cough aerosols in the respirable range (<5 μm), and most reported inter-person contact with suboptimal protective mask usage. WGS identified 17 (19%) of the 90 patients (with available sequence data) that were discharged home before the diagnosis of 20 downstream cases of extensively drug-resistant tuberculosis with almost identical sequencing profiles suggestive of community-based transmission (five or fewer single nucleotide polymorphisms different and with identical resistance-encoding mutations for 14 drugs). 11 (55%) of these downstream cases had HIV co-infection and ten (50%) had died by the end of the study. 22 (56%) of 39 isolates in patients discharged home after treatment failure were resistant to eight or more drugs. However, five (16%) of 31 isolates were susceptible to rifabutin and more than 90% were likely to be sensitive to linezolid, bedaquiline, and delamanid. INTERPRETATION: More than half of the patients with programmatically incurable tuberculosis were discharged into the community where they remained for an average of 16 months, were at risk of expectorating infectious cough aerosols, and posed a threat of transmission of extensively drug-resistant tuberculosis. Urgent action, including appropriate containment strategies, is needed to address this situation. Access to delamanid, bedaquiline, linezolid, and rifabutin, when appropriate, must be accelerated along with comprehensive drug susceptibility testing. FUNDING: UK Medical Research Council, South African Medical Research Council, South African National Research Foundation, European & Developing Countries Clinical Trials Partnership, Oppenheimer Foundation, Newton Fund, Biotechnology and Biological Sciences Research Council, King Abdullah University of Science & Technology

A propensity score-matched, real-world comparison of ustekinumab vs vedolizumab as a second-line treatment for Crohn's disease. The Cross Pennine study II

BackgroundThe optimal choice of biological agents after failure of anti-tumour-necrosis-factor-(TNF)α agent in Crohn's disease (CD) is yet to be defined.AimsTo assess the effectiveness and safety of ustekinumab compared to vedolizumab as second-line treatment in CD patients who failed anti-TNFα therapy.MethodsRetrospective analysis of clinical response and remission at 14 and 52 weeks to ustekinumab by physician global assessment (PGA). A propensity score-matched analysis with a cohort treated with vedolizumab was performed.ResultsOf 282 patients (mean age 40 ± 15, F:M ratio 1.7:1) treated with ustekinumab, clinical response or remission was reached by 200/282 patients (70.9%) at 14 weeks, and 162/259 patients (62.5%) at 52 weeks. Overall, 74 adverse events occurred, of which 26 were labelled as serious (8.3 per 100 person-year). After exclusion of patients without prior anti-TNFα exposure and patients previously exposed to vedolizumab or ustekinumab, we analysed 275/282 patients (97.5%) on ustekinumab and 118/135 patients (87.4%) on vedolizumab. Propensity score analysis revealed that at 14 weeks, patients treated with ustekinumab were 38% (95% CI 25%-50%; P ConclusionsUstekinumab was effective and well tolerated in this real-world cohort. While ustekinumab proved more effective at 14-weeks, we found no statistically significant differences at 52 weeks compared to vedolizumab

Assessing Responsible Innovation Training

There is broad agreement that one important aspect of responsible innovation (RI) is to provide training on its principles and practices to current and future researchers and innovators, notably including doctoral students. Much less agreement can be observed concerning the question of what this training should consist of, how it should be delivered and how it could be assessed. The increasing institutional embedding of RI leads to calls for the alignment of RI training with training in other subjects. One can therefore observe a push towards the official assessment of RI training, for example in the recent call for proposals for centres for doctoral training by UK Research and Innovation. This editorial article takes its point of departure from the recognition that the RI community will need to react to the call for assessment of RI training. It provides an overview of the background and open questions around RI training and assessment as a background of examples of RI training assessment at doctoral level. There is unlikely to be one right way of assessing RI training across institutions and disciplines, but we expect that the examples provided in this article can help RI scholars and practitioners orient their training and its assessment in ways that are academically viable as well as supportive of the overall aims of RI

Supporting the uptake of Cyberinfrastructure in the Social Sciences and the challenges faced

In this paper we provide arguments as to why the tools and resources that ReDReSS offers provide an effective and ultimately unique online learning environment for social science researchers. Learning content is provided in a variety of formats including audio-visual recordings of lectures and workshops. This is complemented by a range of classification and search tools to facilitate the construction of 'learning ladders' for self motivated researchers wishing to acquire new skills. Web 2.0 style collaboration tools are included to give a rich experience and to stimulate community engagement. Statistics indicate the popularity of the resources offered by the project, and demonstrate the importance of the ReDReSS project and the services and resources it has to offer