INFO2009 Group 1 -- Open Source Software Licensing Infographic

An infographic for open source software licensing. This resource can serve as a simple introduction to open source software licensing, and as a reference for future use

Parties, mandates and multilevel politics : Subnational variation in British general election manifestos

Earlier versions were presented at the ECPR Joint Sessions Workshop on ‘How and Why of Party Manifestos in New and Established Democracies’, University of St. Gallen, April 2011, and at PSA and EPOP Conferences in 2011. We are grateful to all participants for their feedback, and particularly Bob Harmel and Lars Svasand for their comments and leading this project. We are also grateful to Dai Moon for discussions around Welsh manifestos and highlighting some otherwise unavailable literature. The usual disclaimers naturally apply. Alistair Clark gratefully acknowledges the financial support of a British Academy Overseas Conference Grant, Award Number OC100383 for travel to the 2011 ECPR Joint Sessions. The final definitive version of this paper has been published in Party Politics by SAGE Publications Ltd and is available on the journal website at: http://ppq.sagepub.com/ All Rights Reserved © Alistair Clark and Lynn Bennie.Peer reviewedPostprin

Labour party adaptation to multilevel politics : evidence from British general election manifestos

We are grateful to participants at the March 2018 ‘Manifesto Co-ordination in Multi-Level Settings’ workshop at Universitè Libre de Bruxelles and Waseda University for feedback on an earlier version of this paper. We are also grateful to the three anonymous reviewers for their extremely helpful comments.Peer reviewedPostprin

The many roles of manifestos at the subnational level in British general elections

Alistair Clark and Lynn Bennie assess the roles of national party manifestos across Britain, Scotland, and Wales in UK-wide general elections, and illustrate the multiple functions these documents perform in complex multilevel systems of government

Minocycline 200 mg or 400 mg versus placebo for mild Alzheimer's disease: the MADE Phase II, three-arm RCT

Background: Minocycline is an anti-inflammatory drug and protects against the toxic effects of β-amyloid in vitro and in animal models of Alzheimer’s disease. To the best of our knowledge, no randomised placebo-controlled clinical trials in patients with Alzheimer’s disease looking at the efficacy and tolerability of minocycline have been carried out. Objectives: The trial investigated whether or not minocycline was superior to placebo in slowing down the rate of decline in cognitive and functional ability over 2 years. The safety and tolerability of minocycline were also assessed. Design: A Phase II, three-arm, randomised, double-blind, multicentre trial with a semifactorial design. Participants continued on trial treatment for up to 24 months. Setting: Patients were identified from memory services, both within the 32 participating NHS trusts and within the network of memory services supported by the Dementias and Neurodegenerative Diseases Research Network (also known as DeNDRoN). Participants: Patients with standardised Mini Mental State Examination scores of > 23 points and with Alzheimer’s disease assessed by the National Institute on Aging–Alzheimer’s Association’s criteria were identified from memory services. Intervention: Patients with mild Alzheimer’s disease were randomly allocated 1 : 1 : 1 to receive one of three treatments: arm 1 – 400 mg per day of minocycline; arm 2 – 200 mg per day of minocycline; or arm 3 – placebo. Patients continued treatment for 24 months. Participants, investigators and outcome assessors were blind to treatment allocation. Main outcome measures: Primary outcome measures were decline in standardised Mini Mental State Examination and Bristol Activities of Daily Living Scale scores of combined minocycline treatment arms versus placebo, as analysed by intention-to-treat repeated measures regression. Results: Between 23 May 2014 and 14 April 2016, 554 participants were randomised. Of the 544 eligible participants, the mean age was 74.3 years and the average standardised Mini Mental State Examination score was 26.4 points. A total of 252 serious adverse events were reported, with the most common categories being neuropsychiatric and cardiocirculatory. Significantly fewer participants completed treatment with 400 mg of minocycline [29% (53/184)] than 200 mg [62% (112/181)] or placebo [64% (114/179)] (p < 0.0001), mainly because of gastrointestinal symptoms (p = 0.0008), dermatological side effects (p = 0.02) and dizziness (p = 0.01). Assessment rates were also lower in the 400-mg treatment arm: 68% (119 of 174 expected) for standardised Mini Mental State Examination scores at 24 months, compared with 82% (144/176) for the 200-mg treatment arm and 84% (140/167) for the placebo arm. Decline in standardised Mini Mental State Examination scores over the 24-month study period in the combined minocycline arms was similar to that in the placebo arm (4.1- vs. 4.3-point reduction; p = 0.9), as was the decline in the 400- and 200-mg treatment arms (3.3 vs. 4.7 points; p = 0.08). Likewise, worsening of Bristol Activities of Daily Living Scale scores over 24 months was similar in all trial arms (5.7, 6.6 and 6.2 points in the 400-mg treatment arm, 200-mg treatment arm and placebo arm, respectively; a p-value of 0.57 for minocycline vs. placebo and a p-value of 0.77 for 400 vs. 200 mg of minocycline). Results were similar in different patient subgroups and in sensitivity analyses adjusting for missing data. Limitations: Potential limitations of the study include that biomarkers were not used to confirm the diagnosis of Alzheimer’s disease, as these and apolipoprotein E (APOE) genotyping are not routinely available within the NHS. Compliance was also worse than expected and differential follow-up rates were observed, with fewer assessments obtained for the 400-mg treatment arm than for the 200-mg treatment and placebo arms. Conclusions: Minocycline does not delay the progress of cognitive or functional impairment in people with mild Alzheimer’s disease over a 2-year period. Minocycline at a dose of 400 mg is poorly tolerated in this population. Future work: The Minocycline in mild Alzheimer’s DiseasE (MADE) study provides a framework for a streamlined trial design that can be usefully applied to test other disease-modifying therapies

The global costs and benefits of expanding Marine Protected Areas

Marine ecosystems and the services they provide contribute greatly to human well-being but are becoming degraded in many areas around the world. The expansion of Marine Protected Areas (MPAs) has been advanced as a potential solution to this problem but their economic feasibility has hardly been studied. We conduct an economic assessment of the costs and benefits of six scenarios for the global expansion of MPAs. The analysis is conducted at a high spatial resolution, allowing the estimated costs and benefits to reflect the ecological and economic characteristics and context of each MPA and marine ecosystem. The results show that the global benefits of expanding MPAs exceed their costs by a factor 1.4–2.7 depending on the location and extent of MPA expansion. Targeting protection towards pristine areas with high biodiversity yields higher net returns than focusing on areas with low biodiversity or areas that have experienced high human impact

Transpiration rates from mature Eucalyptus grandis × E. nitens clonal hybrid and Pinus elliottii plantations near the Two Streams Research Catchment, South Africa

DATA AVAILABILITY : Due to the high frequency of the data used in this paper, all data with linked figures and tables have been uploaded to the central database at the Centre for Water Resources Research (CWRR) at the University of KwaZulu-Natal in Pietermaritzburg. The author, Nkosinathi David Kaptein, can be contacted for these data at [email protected] plantations are the dominant species currently planted within the South African commercial forestry industry. Improvements in bio-economy markets for dissolving wood pulp products have seen an expansion in fast-growing Eucalyptus plantations due to their higher productivity rates and better pulping properties than pine. This has raised concerns regarding the expansion of Eucalyptus plantations and how they will affect water resources as they have been reported to have higher water use (quantified using transpiration rates) than pine. We measured transpiration rates (mm yr−1), diameter at breast height (quantified as quadratic mean diameter, Dq, m) and leaf area index of an 8-year-old Eucalyptus grandis × Eucalyptus nitens clonal hybrid (GN) and a 20-year-old Pinus elliottii. Transpiration rates were measured for two consecutive hydrological years (2019/20 and 2020/21) using a heat ratio sap-flow method, calibrated against a lysimeter. In the 2019/20 year, annual transpiration for P. elliottii exceeded GN by 28 %, while for the 2020/21 hydrological year, there was no significant difference between the transpiration of the two species, despite a 17 % and 21 % greater leaf area index for P. elliottii than GN in 2019/20 and 2020/21 measurement years respectively. Quadratic mean diameter increments were statistically similar (p > 0.05) in 2019/20, whereas the 2020/21 year produced significant differences (p<0.05). Tree transpiration is known to be influenced by climatic variables; therefore, a random forest regression model was used to test the level of influence between tree transpiration and climatic parameters. The soil water content, solar radiation and vapour pressure deficit were found to highly influence transpiration, suggesting these variables can be used in future water-use modelling studies. The profile water content recharge was influenced by rainfall events. After rainfall and soil profile water recharge, there was a rapid depletion of soil water by the GN trees, while the soil profile was depleted more gradually at the P. elliottii site. As a result, trees at the GN site appeared to be water stressed (reduced stem diameters and transpiration), suggesting that there was limited access to alternative water source (such as groundwater). The study concluded that previous long-term paired catchment studies indicate that eucalypts use more water than pine; however, periods of soil water stress and reduced transpiration observed in this study must be accommodated in hydrological models. Long-term total soil water balance studies are recommended in the same region to understand the long-term impact of commercial plantations on water resources.The South African Department of Water and Sanitation through a Water Research Commission project.https://www.hydrology-and-earth-system-sciences.nethj2024Plant Production and Soil ScienceSDG-15:Life on lan

PhosphoregDB: The tissue and sub-cellular distribution of mammalian protein kinases and phosphatases

BACKGROUND: Protein kinases and protein phosphatases are the fundamental components of phosphorylation dependent protein regulatory systems. We have created a database for the protein kinase-like and phosphatase-like loci of mouse that integrates protein sequence, interaction, classification and pathway information with the results of a systematic screen of their sub-cellular localization and tissue specific expression data mined from the GNF tissue atlas of mouse. RESULTS: The database lets users query where a specific kinase or phosphatase is expressed at both the tissue and sub-cellular levels. Similarly the interface allows the user to query by tissue, pathway or sub-cellular localization, to reveal which components are co-expressed or co-localized. A review of their expression reveals 30% of these components are detected in all tissues tested while 70% show some level of tissue restriction. Hierarchical clustering of the expression data reveals that expression of these genes can be used to separate the samples into tissues of related lineage, including 3 larger clusters of nervous tissue, developing embryo and cells of the immune system. By overlaying the expression, sub-cellular localization and classification data we examine correlations between class, specificity and tissue restriction and show that tyrosine kinases are more generally expressed in fewer tissues than serine/threonine kinases. CONCLUSION: Together these data demonstrate that cell type specific systems exist to regulate protein phosphorylation and that for accurate modelling and for determination of enzyme substrate relationships the co-location of components needs to be considered

Replication and Meta-Analysis of 13,000 Cases Defines the Risk for Interleukin-23 Receptor and Autophagy-Related 16-Like 1 Variants in Crohn’s Disease

BACKGROUND/OBJECTIVE: Variants in the interleukin-23 receptor (IL23R) and the autophagy-related 16-like 1 (ATG16L1) genes have been associated with an increased risk of Crohn’s disease (CD). Both genes were identified through genome-wide association scans and subsequent studies have validated these associations. To assess the effect size of these variants, an independent case-control association study and meta-analysis were performed. METHODS: British Caucasian subjects with inflammatory bowel disease (n=500) and 877 ethnically matched controls were genotyped for the disease-associated variants in IL23R and ATG16L1. In addition, meta-analyses of 12,991 patients and 14,598 controls, and 11,909 patients and 15,798 controls, were conducted on independently published data for the associations between IL23R and ATG16L1 variants and CD, respectively. RESULTS: In the present cohort, both susceptibility variants showed highly significant associations, including IL23R (rs11209026, P=0.0006; OR 0.37; 95% CI 0.21 to 0.67) and ATG16L1 (rs2241880, P=0.0017; OR 1.36; 95% CI 1.12 to 1.66). The meta-analysis based on the random effects model showed similar combined effects for rs11209026 (n=26, OR 0.41; 95% CI 0.37 to 0.46) and rs2241880 (n=25, OR 1.33; 95% CI 1.28 to 1.39). There was no statistically significant gene-gene interaction between caspase recruitment domain (CARD15) variants and the IL23R or ATG16L1 polymorphisms (P=0.44 and P=0.24, respectively). CONCLUSION: The present cohort and meta-analysis provides strong evidence that, in addition to CARD15, polymorphisms in both IL23R and ATG16L1 alter susceptibility to CD and that these effects are consistent across all populations of European ancestry; however, only ATG16L1 is relevant to inflammatory bowel disease in the Asian population