Roskilde University

About: Roskilde University is a education organization based out in Roskilde, Denmark. It is known for research contribution in the topics: Politics & Population. The organization has 2319 authors who have published 7551 publications receiving 177088 citations. The organization is also known as: Roskilde Universitet.

dbCAN2: a meta server for automated carbohydrate-active enzyme annotation

Abstract: Complex carbohydrates of plants are the main food sources of animals and microbes, and serve as promising renewable feedstock for biofuel and biomaterial production. Carbohydrate active enzymes (CAZymes) are the most important enzymes for complex carbohydrate metabolism. With an increasing number of plant and plant-associated microbial genomes and metagenomes being sequenced, there is an urgent need of automatic tools for genomic data mining of CAZymes. We developed the dbCAN web server in 2012 to provide a public service for automated CAZyme annotation for newly sequenced genomes. Here, dbCAN2 (http://cys.bios.niu.edu/dbCAN2) is presented as an updated meta server, which integrates three state-of-the-art tools for CAZome (all CAZymes of a genome) annotation: (i) HMMER search against the dbCAN HMM (hidden Markov model) database; (ii) DIAMOND search against the CAZy pre-annotated CAZyme sequence database and (iii) Hotpep search against the conserved CAZyme short peptide database. Combining the three outputs and removing CAZymes found by only one tool can significantly improve the CAZome annotation accuracy. In addition, dbCAN2 now also accepts nucleotide sequence submission, and offers the service to predict physically linked CAZyme gene clusters (CGCs), which will be a very useful online tool for identifying putative polysaccharide utilization loci (PULs) in microbial genomes or metagenomes.

Universality of ac conduction in disordered solids

Abstract: The striking similarity of ac conduction in quite different disordered solids is discussed in terms of experimental results, modeling, and computer simulations. After giving an overview of experiment, a macroscopic and a microscopic model are reviewed. For both models the normalized ac conductivity as a function of a suitably scaled frequency becomes independent of details of the disorder in the extreme disorder limit, i.e., when the local randomly varying mobilities cover many orders of magnitude. The two universal ac conductivities are similar, but not identical; both are examples of unusual non-power-law universalities. It is argued that ac universality reflects an underlying percolation determining dc as well as ac conductivity in the extreme disorder limit. Three analytical approximations to the universal ac conductivities are presented and compared to computer simulations. Finally, model predictions are briefly compared to experiment.

Colloquium : The glass transition and elastic models of glass-forming liquids

Abstract: Basic characteristics of the liquid-glass transition are reviewed, emphasizing its universality and briefly summarizing the most popular phenomenological models. Discussion is focused on a number of alternative models which one way or the other connect the fast and slow degrees of freedom of viscous liquids. It is shown that all these ``elastic'' models are equivalent in the simplest approximation.

Participatory Design: Issues and Concerns

Abstract: We characterize Participatory Design (PD) as a maturing area of research and as an evolving practice among design professionals. Although PD has been applied outside of technology design, here we focus on PD in relation to the introduction of computer-based systems at work. We discuss three main issues addressed by PD researchers; the politics of design; the nature of participation; and method, tools and techniques for participation. We also report on the conditions for the transfer of ’’PD results‘‘ to workers, user groups, and design professionals that have characterized PD over time and across geopolitical terrains. The topic of the sustainability of PD within an organizational context is also considered. The article concludes with a discussion of common issues explored within PD and CSCW and frames directions for a continuing dialogue between researchers and practitioners from the two fields. The article draws on a review of PD and CSCW literatures as well as on our own research and practical experiences.