A bioinformatics toolkit: in silico tools and online resources for investigating genetic variation

With the advent of large-scale next-generation sequencing initiatives, there is an increasing importance to interpret and understand the potential phenotypic influence of identified genetic variation and its significance in the human genome. Bioinformatics analyses can provide useful information to assist with variant interpretation. This review provides an overview of tools/resources currently available, and how they can help predict the impact of genetic variation at the deoxyribonucleic acid, ribonucleic acid, and protein level

Understanding power, social capital and trust alongside near real-time water quality monitoring and technological development collaboration

We report on qualitative social research conducted with stakeholders in a local agricultural knowledge and advice network associated with a collaborative water quality monitoring project. These farmers, advisors and researchers allude to existing social dynamics, technological developments, and (more general) social evolution which is analysed against a novel analytical framework. This framework considers notions of power, social capital, and trust as related and dynamic, forming the basis of our contribution to knowledge. We then probe the data to understand perceived impacts of the collaborative project and social interaction associated with this research project, which involved cutting edge automated and frequent water quality monitoring that allowed for near real-time access to data visualisation displayed via a bespoke mobile or web ‘app’ (1622WQ). Our findings indicate that a multi-faceted approach to assessing and intervening based on consideration of multiple social dimensions holds promise in terms of creating conditions that allow for individual and group learning to encourage changes in thinking required to result in improved land management practice

Grasping at digitalisation: turning imagination into fact in the sugarcane farming community

Nutrient runoff from catchments that drain into the Great Barrier Reef (GBR) is a significant source of stress for this World Heritage Area. An alliance of collaborative on-ground water quality monitoring (Project 25) and technologically driven digital application development (Digiscape GBR) projects were formulated to provide data that highlighted the contribution of a network of Australian sugar cane farmers, amongst other sources, to nutrient runoff. This environmental data and subsequent information were extended to the farming community through scientist-led feedback sessions and the development of specialised digital technology (1622 (TM) WQ) that help build an understanding of the nutrient movements, in this case nitrogen, such that farmers might think about and eventually act to alter their fertilizer application practices. This paper reflects on a socio-environmental sustainability challenge that emerged during this case study, by utilising the nascent concept of digi-grasping. We highlight the importance of the entire agricultural knowledge and advice network being part of an innovation journey to increase the utility of digital agricultural technologies developed to increase overall sustainability. We develop the digi-MAST analytical framework, which explores modes of being and doing in the digital world, ranging from 'the everyday mystery of the digital world (M)', through digital 'awareness (A)', digitally 'sparked' being/s (S), and finally the ability of individuals and/or groups to 'transform (T)' utilising digital technologies and human imaginations. Our digi-MAST framework allows us to compare agricultural actors, in this case, to understand present modes of digi-grasping to help determine the resources and actions likely to be required to achieve impact from the development of various forms of digital technological research outputs

Effectiveness of the delivery of interventions to prevent malaria in pregnancy in Kenya.

BACKGROUND: Coverage with malaria in pregnancy interventions remains unacceptably low. Implementation research is needed to identify and quantify the bottlenecks for the delivery and use of these life-saving interventions through antenatal clinics (ANC). METHODS: A cross-sectional study was carried out in ANC across nine health facilities in western Kenya. Data were collected for an individual ANC visit through structured observations and exit interviews with the same ANC clients. The cumulative and intermediate systems effectiveness for the delivery of intermittent preventive treatment (IPTp) and insecticide-treated nets (ITNs) to eligible pregnant women on this one specific visit to ANC were estimated. RESULTS: Overall the ANC systems effectiveness for delivering malaria in pregnancy interventions was suboptimal. Only 40 and 53 % of eligible women received IPTp by directly observed therapy as per policy in hospitals and health centres/dispensaries respectively. The overall systems effectiveness for the receipt of IPTp disregarding directly observed therapy was 62 and 72 % for hospitals and lower level health facilities, respectively. The overall systems effectiveness for ITNs for first ANC visit was 63 and 67 % for hospitals and lower level facilities, respectively. CONCLUSION: This study found that delivery of IPTp and ITNs through ANC was ineffective and more so for higher-level facilities. This illustrates missed opportunities and provider level bottlenecks to the scale up and use of interventions to control malaria in pregnancy delivered through ANC. The high level of clustering within health facilities suggest that future studies should assess the feasibility of implementing interventions to improve systems effectiveness tailored to the health facility level

Climate change alterations to ecosystem dominance: how might sponge-dominated reefs function?

Anthropogenic stressors are impacting ecological systems across the world. Of particular concern are the recent rapid changes occurring in coral reef systems. With ongoing degradation from both local and global stressors, future reefs are likely to function differently to current coral-dominated ecosystems. Determining key attributes of future reef states is critical to reliably predict outcomes for ecosystem service provision. Here we explore the impacts of changing sponge dominance on coral reefs. Qualitative modelling of reef futures suggests that changing sponge dominance due to increased sponge abundance will have different outcomes for other trophic levels compared with increased sponge dominance as a result of declining coral abundance. By exploring uncertainty in the model outcomes we identify the need to: i) quantify changes in carbon flow through sponges, ii) determine the importance of food limitation for sponges, iii) assess the ubiquity of the recently described 'sponge loop', iv) determine the competitive relationships between sponges and other benthic taxa, particularly algae, and v) understand how changing dominance of other organisms alters trophic pathways and energy flows through ecosystems. Addressing these knowledge gaps will facilitate development of more complex models that assess functional attributes of sponge-dominated reef ecosystems. This article is protected by copyright. All rights reserved

Intelligent Controlling Simulation of Traffic Flow in a Small City Network

We propose a two dimensional probabilistic cellular automata for the description of traffic flow in a small city network composed of two intersections. The traffic in the network is controlled by a set of traffic lights which can be operated both in fixed-time and a traffic responsive manner. Vehicular dynamics is simulated and the total delay experienced by the traffic is evaluated within specified time intervals. We investigate both decentralized and centralized traffic responsive schemes and in particular discuss the implementation of the {\it green-wave} strategy. Our investigations prove that the network delay strongly depends on the signalisation strategy. We show that in some traffic conditions, the application of the green-wave scheme may destructively lead to the increment of the global delay.Comment: 8 pages, 10 eps figures, Revte

Tradition and Innovation in Classical Sociology: Tenth Anniversary Report of JCS

Perhaps the very idea of ‘classical sociology’ is a contradiction in terms; sociology was originally that social science peculiarly concerned with the study of the processes of modernization and the condition of modernity, that is, with the critical examination of ‘post-traditional’ developments and hence ‘post-classical’ forms of social organization. Its concerns have broadened subsequently, but the focus of sociology remains on the exploration of the nature and development of social structure and social action in the post-traditional world. In the nineteenth century, sociologists invented new concepts and experimented with new methods to study the emergence of unprecedented social phenomena and the rise of a type of society that was variously called ‘modern society’, ‘industrial society’, and ‘capitalist society’. In the twentieth century, there was a further elaboration of key sociological concepts, and it became increasingly popular to proclaim the rise of yet another form of society, described as ‘post-industrial society’, ‘late modern society’, ‘post-modern society’, or ‘network society’. In the current century, the idea of globalization has swept everything before it, leading to the notion that ‘society’ has now been replaced by flows and networks of people, objects, and ideas. With the transition from traditional to modern societies, the integrative power of Gemeinschaft began to compete with the systemic power of Gesellschaft; with the transition from modern to late modern societies, the local horizons of our Lebenswelt appear to be increasingly shaped by the deterritorialized networks of the Weltgesellschaft. If we are ‘post-traditional’, surely we are also ‘post-classical’. It is hardly surprising, therefore, that many contemporary sociologists have some difficulty accepting the very idea of classical sociology