More ties than we thought

We extend the existing enumeration of neck tie-knots to include tie-knots with a textured front, tied with the narrow end of a tie. These tie-knots have gained popularity in recent years, based on reconstructions of a costume detail from The Matrix Reloaded, and are explicitly ruled out in the enumeration by Fink and Mao (2000). We show that the relaxed tie-knot description language that comprehensively describes these extended tie-knot classes is context free. It has a regular sub-language that covers all the knots that originally inspired the work. From the full language, we enumerate 266 682 distinct tie-knots that seem tie-able with a normal neck-tie. Out of these 266 682, we also enumerate 24 882 tie-knots that belong to the regular sub-language.Comment: Accepted at PeerJ Computer Science 12 pages, 6 color photograph

Local Responses to Development Pressures : Conflictual Politics of Sprawl and Environmental Conservation

There is an increasing opposition to the absorption of farmland and natural habitats by housing subdivisions and infrastructure, a symptom of urban sprawl. Through an analysis of these challenges at a regional scale, we address the contradictions and tensions in the politics of sprawl and environmental conservation. This article compares environmental conservation on the Oak Ridges Moraine in Richmond Hill and Caledon (two towns in the Greater Toronto Area) and argues that local political cultures, geography, and the density and political influence of citizens and social movements can have an impact on local responses to pressures of development. In the end, however, environmental activism in both towns is subjected to and shaped by an overall growth agenda.L’envahissement des terres agricoles et des milieux naturels par des lotissements et des infrastructures résidentiels suscite de plus en plus d’opposition. Il en résulte des tensions et des contradictions entre les pratiques d’urbanisation et les politiques de conservation de l’environnement. Cet article compare la gestion à des fins de conservation de la moraine Oak Ridges à Richmond Hill et Caledon (deux municipalités de la région métropolitaine de Toronto). Il est constaté que la culture politique locale, la géographie, la densité et l’influence politique des mouvements sociaux peuvent avoir à l’échelle locale un impact sur les pratiques d’urbanisation. Il reste que les mobilisations environnementales dans les deux municipalités deviennent, malgré tout, subjugées par des objectifs de croissance

Knotty Tales: Canadian Staples and Post-Staples Forest Policy Narratives in an Era of Transition from Extractive to ‘Attractive’ Industries

Political economists have typically understood the forest sector as part of the Canadian staples economy: early European settlers used forests for fuel, farming and construction purposes, and industry began later to cut raw timber and manufacture pulp and paper for export. According to the staples narrative, introduced by William Mackintosh and elaborated by Harold Innis, in order to settle the land and extract its resources, including forest products, colonists and settlers built an entire society and economy “organized around the labour force, technological regime, legal order, and financial system needed to serve the ends of resource extraction”. Building upon Innis’ work, a nationalist political economy school has criticized the domination of the Canadian resource economy by foreign capital, markets and technology, and advocated a ‘made-in-Canada’ industrial strategy. Studies on the forest sector have been especially prominent in probing the contingencies, specificities, and possibilities of building a forest policy that is more socially equitable, more value-added oriented, and more integrated into the national economy. More recently, however, many observers in the political economy and policy community tradition have noted a shift from an “extractive to an attractive model of development” within the forest sector, or what Hutton calls the “staples in decline syndrome”. Though he concedes that it is possible to overstate the staples in decline syndrome, he maintains that “we may be at the advent of a ‘post-staples’ state, in which resource extraction is essentially a residual of the national economic structure, a vestige of an historical development which sustained many Canadian regions”. In order to evaluate the extent to which Hutton’s observations ring true, this chapter grapples with divergent methods of approaching and analysing forestry

Assessing Recent Smoking Status by Measuring Exhaled Carbon Monoxide Levels

The main expectations of applying proteomics technologies to clinical questions are the discovery of disease related biomarkers. Despite technological advancement to increase proteome coverage and depth to meet these expectations the number of generated biomarkers for clinical use is small. One of the reasons is that found potential biomarkers often are false discoveries. Small sample sizes, in combination with patient sample heterogeneity increase the risk of false discoveries. To be able to extract relevant biological information from such data, high demands are put on the experimental design and the use of sensitive and quantitatively accurate technologies. The overall aim of this thesis was to apply quantitative proteomics methods for biomarker discovery in clinical samples. A method for reducing bias by controlling for individual variation in smoking habits is described in paper I. The aim of the method was objective assessment of recent smoking in clinical studies on inflammatory responses. In paper II, the proteome of alveolar macrophages obtained from smoking subjects with and without the inflammatory lung disease chronic obstructive pulmonary disease (COPD) were quantified by two-dimensional gel-electrophoresis (2-DE). A gender focused analysis showed protein level differences within the female group, with down-regulation of lysosomal pathway and up-regulation of oxidative pathway in COPD patients. Paper III, a mass spectrometry based proteomics analysis of tumour samples, contributes to the molecular understanding of vulvar squamous cell carcinoma (VSCC) and we identified a high risk patient subgroup of HPV-negative tumours based on the expression of four proteins, further suggesting that this subgroup is characterized by an altered ubiquitin-proteasome signalling pathway. Paper III describes a data analysis workflow for the extraction of biological information from quantitative mass spectrometry based proteomics data. High patient-to-patient tumour proteome variability was addressed by using pathway profiling on individual tumour data, followed by comparison of pathway association ranks in a multivariate analysis. We show that pathway data on individual tumour level can detect subpopulations of patients and identify pathways of specific importance in pre-defined clinical groups by the use of multivariate statistics. In paper IV, the potentials and limits of quantitative mass spectrometry on clinical samples was evaluated by defining the quantitative accuracy of isobaric labels and label-free quantification. Quantification by isobaric labels in combination with pI pre-fractionation showed a lower limit of quantification (LOQ) than a label-free analysis without pI pre-fractionation, and 6-plex TMT were more sensitive than 8-plex iTRAQ. Precursor mixing measured by isolation interference (MS1 interference) is more linked to the quantitative accuracy of isobaric labels than reporter ion interference (MS2 interference). Based on that we could define recommendations for how much isolation interference that can be accepted; in our data <30% isolation interference had little effect the quantitative accuracy. In conclusion, getting biological knowledge from proteomics studies requires a careful study design, control of possible confounding factors and the use of clinical data to identify disease subtypes. Further, to be able to draw conclusions from the data, the analysis requires accurate quantitative data and robust statistical tools to detect significant protein alterations. Methods around these issues are developed and discussed in this thesis

Is Scotland a Westminster-style Majoritarian Democracy or a Scandinavian-style Consensus Democracy? A Comparison of Scotland, the UK and Sweden

Peer reviewedPostprin

Are Better Workers Also Better Humans? On Pharmacological Cognitive Enhancement in the Workplace and Conflicting Societal Domains

The article investigates the sociocultural implications of the changing modern workplace and of pharmacological cognitive enhancement (PCE) as a potential adaptive tool from the viewpoint of social niche construction. We will attempt to elucidate some of the sociocultural and technological trends that drive and influence the characteristics of this specific niche, and especially to identify the kind of capabilities and adaptations that are being promoted, and to ascertain the capabilities and potentialities that might become diminished as a result. In this context, we will examine what PCE is, and how and why it might be desirable as a tool for adaptation within the workplace. As human beings are, or at least should be allowed to be, more than merely productive, able-bodied and able-minded workers, we will further examine how adaptation to the workplace niche could result in problems in other domains of modern societal life that require the same or other cognitive capabilities. In this context we will also focus on the concept of responsibility and how it pertains to PCE and the modern workplace niche. This will shed some light on the kind of trends related to workplace niche construction, PCE and capability promotion that we can expect in the future, and on the contexts in which this might be either beneficial or detrimental to the individual as a well-rounded human being, and to other members of society

From insect to man: Photorhabdus sheds light on the emergence of human pathogenicity

Photorhabdus are highly effective insect pathogenic bacteria that exist in a mutualistic relationship with Heterorhabditid nematodes. Unlike other members of the genus, Photorhabdus asymbiotica can also infect humans. Most Photorhabdus cannot replicate above 34°C, limiting their host-range to poikilothermic invertebrates. In contrast, P. asymbiotica must necessarily be able to replicate at 37°C or above. Many well-studied mammalian pathogens use the elevated temperature of their host as a signal to regulate the necessary changes in gene expression required for infection. Here we use RNA-seq, proteomics and phenotype microarrays to examine temperature dependent differences in transcription, translation and phenotype of P. asymbiotica at 28°C versus 37°C, relevant to the insect or human hosts respectively. Our findings reveal relatively few temperature dependant differences in gene expression. There is however a striking difference in metabolism at 37°C, with a significant reduction in the range of carbon and nitrogen sources that otherwise support respiration at 28°C. We propose that the key adaptation that enables P. asymbiotica to infect humans is to aggressively acquire amino acids, peptides and other nutrients from the human host, employing a so called “nutritional virulence” strategy. This would simultaneously cripple the host immune response while providing nutrients sufficient for reproduction. This might explain the severity of ulcerated lesions observed in clinical cases of Photorhabdosis. Furthermore, while P. asymbiotica can invade mammalian cells they must also resist immediate killing by humoral immunity components in serum. We observed an increase in the production of the insect Phenol-oxidase inhibitor Rhabduscin normally deployed to inhibit the melanisation immune cascade. Crucially we demonstrated this molecule also facilitates protection against killing by the alternative human complement pathway

Mass balance of the Greenland Ice Sheet from 1992 to 2018

In recent decades, the Greenland Ice Sheet has been a major contributor to global sea-level rise1,2, and it is expected to be so in the future3. Although increases in glacier flow4–6 and surface melting7–9 have been driven by oceanic10–12 and atmospheric13,14 warming, the degree and trajectory of today’s imbalance remain uncertain. Here we compare and combine 26 individual satellite measurements of changes in the ice sheet’s volume, flow and gravitational potential to produce a reconciled estimate of its mass balance. Although the ice sheet was close to a state of balance in the 1990s, annual losses have risen since then, peaking at 335 ± 62 billion tonnes per year in 2011. In all, Greenland lost 3,800 ± 339 billion tonnes of ice between 1992 and 2018, causing the mean sea level to rise by 10.6 ± 0.9 millimetres. Using three regional climate models, we show that reduced surface mass balance has driven 1,971 ± 555 billion tonnes (52%) of the ice loss owing to increased meltwater runoff. The remaining 1,827 ± 538 billion tonnes (48%) of ice loss was due to increased glacier discharge, which rose from 41 ± 37 billion tonnes per year in the 1990s to 87 ± 25 billion tonnes per year since then. Between 2013 and 2017, the total rate of ice loss slowed to 217 ± 32 billion tonnes per year, on average, as atmospheric circulation favoured cooler conditions15 and as ocean temperatures fell at the terminus of Jakobshavn Isbræ16. Cumulative ice losses from Greenland as a whole have been close to the IPCC’s predicted rates for their high-end climate warming scenario17, which forecast an additional 50 to 120 millimetres of global sea-level rise by 2100 when compared to their central estimate