The Case of Business School Rankings

Drawing on the case of business school rankings, we study how institutions are maintained and remain persistent despite their contested nature. We argue that rankings as institutions can be maintained through subtle disciplinary practices that freeze power relations in recipient organizations. Our analysis rests on a Foucauldian understanding of control emphasizing that rankings discipline (1) by enhancing the visibility of individuals’ performance, (2) by defining ‘normal’ behavior, and (3) by shaping how people understand themselves and the world around them. We show that these three disciplining effects support rankings’ durability, reproducibility, and communicability enhancing their overall stability and diffusion. Our arguments demonstrate that rankings’ relevance and impact is not entirely based on the legitimacy they are able to offer to ranked schools. Rather rankings impel a variety of disciplinary effects within business schools which help to stabilize and diffuse the institution

Using bio.tools to generate and annotate workbench tool descriptions

Workbench and workflow systems such as Galaxy, Taverna, Chipster, or Common Workflow Language (CWL)-based frameworks, facilitate the access to bioinformatics tools in a user-friendly, scalable and reproducible way. Still, the integration of tools in such environments remains a cumbersome, time consuming and error-prone process. A major consequence is the incomplete or outdated description of tools that are often missing important information, including parameters and metadata such as publication or links to documentation. ToolDog (Tool DescriptiOn Generator) facilitates the integration of tools - which have been registered in the ELIXIR tools registry (https://bio.tools) - into workbench environments by generating tool description templates. ToolDog includes two modules. The first module analyses the source code of the bioinformatics software with language-specific plugins, and generates a skeleton for a Galaxy XML or CWL tool description. The second module is dedicated to the enrichment of the generated tool description, using metadata provided by bio.tools. This last module can also be used on its own to complete or correct existing tool descriptions with missing metadata

Relating Neuronal to Behavioral Performance: Variability of Optomotor Responses in the Blowfly

Behavioral responses of an animal vary even when they are elicited by the same stimulus. This variability is due to stochastic processes within the nervous system and to the changing internal states of the animal. To what extent does the variability of neuronal responses account for the overall variability at the behavioral level? To address this question we evaluate the neuronal variability at the output stage of the blowfly's (Calliphora vicina) visual system by recording from motion-sensitive interneurons mediating head optomotor responses. By means of a simple modelling approach representing the sensory-motor transformation, we predict head movements on the basis of the recorded responses of motion-sensitive neurons and compare the variability of the predicted head movements with that of the observed ones. Large gain changes of optomotor head movements have previously been shown to go along with changes in the animals' activity state. Our modelling approach substantiates that these gain changes are imposed downstream of the motion-sensitive neurons of the visual system. Moreover, since predicted head movements are clearly more reliable than those actually observed, we conclude that substantial variability is introduced downstream of the visual system

TAMU-CPT/one_snp_away: Initial Release

No description provided

erasche/docker-chado: 1.31-jenkins110.1-pg9.5

Minor release: same sql dump as 1.31-jenkins110-pg9.5 + bug fix in startup scrip

erasche/docker-tripal: v2.1.1

Based on Tripal 2.1 + some fixes from 7.x-2.x Tripal branch Fixes and updates to modules: tripal_analysis_blast + tripal_elasticsearch Ready to work with Tripaille 2.

Phage spanins: diversity, topological dynamics and gene convergence

Abstract Background Spanins are phage lysis proteins required to disrupt the outer membrane. Phages employ either two-component spanins or unimolecular spanins in this final step of Gram-negative host lysis. Two-component spanins like Rz-Rz1 from phage lambda consist of an integral inner membrane protein: i-spanin, and an outer membrane lipoprotein: o-spanin, that form a complex spanning the periplasm. Two-component spanins exist in three different genetic architectures; embedded, overlapped and separated. In contrast, the unimolecular spanins, like gp11 from phage T1, have an N-terminal lipoylation signal sequence and a C-terminal transmembrane domain to account for the topology requirements. Our proposed model for spanin function, for both spanin types, follows a common theme of the outer membrane getting fused with the inner membrane, effecting the release of progeny virions. Results Here we present a SpaninDataBase which consists of 528 two-component spanins and 58 unimolecular spanins identified in this analysis. Primary analysis revealed significant differences in the secondary structure predictions for the periplasmic domains of the two-component and unimolecular spanin types, as well as within the three different genetic architectures of the two-component spanins. Using a threshold of 40% sequence identity over 40% sequence length, we were able to group the spanins into 143 i-spanin, 125 o-spanin and 13 u-spanin families. More than 40% of these families from each type were singletons, underlining the extreme diversity of this class of lysis proteins. Multiple sequence alignments of periplasmic domains demonstrated conserved secondary structure patterns and domain organization within family members. Furthermore, analysis of families with members from different architecture allowed us to interpret the evolutionary dynamics of spanin gene arrangement. Also, the potential universal role of intermolecular disulfide bonds in two-component spanin function was substantiated through bioinformatic and genetic approaches. Additionally, a novel lipobox motif, AWAC, was identified and experimentally verified. Conclusions The findings from this bioinformatic approach gave us instructive insights into spanin function, evolution, domain organization and provide a platform for future spanin annotation, as well as biochemical and genetic experiments. They also establish that spanins, like viral membrane fusion proteins, adopt different strategies to achieve fusion of the inner and outer membranes

GMOD/Apollo: Apollo2.0.5(JB#9334e76fd)

Apollo 2.0.5 Official Release Some of the new features include: Numerous UI and performance improvements, including easier navigation between annotated elements via the Annotator Panel. Better server and client-side reporting. Upgrade to Java 8 / GWT 2.8, and updated JBrowse (use ./apollo clean-all or install from an formal release download) It is now possible to also include metadata on import. Some important bug fixes: Import script were logging preferences unnecessarily. Improved security for non-public genomes. Fixed for going between logged-out mode and the Annotator Panel while retaining history. Improved display of sequence over the annotation after moving the annotation to the opposite strand. Users will see a warning when it is not possible to create an intron with canonical splice sites in the selected region. The complete change log can be found at: https://github.com/GMOD/Apollo/blob/master/ChangeLog.md Please review the documentation pages for more details: http://genomearchitect.readthedocs.io/en/latest/ Note: You can find a guide upgrading existing Apollo installations here: http://genomearchitect.readthedocs.io/en/stable/Migration.html Please open a GitHub issue if you find any problems: https://github.com/GMOD/Apollo/issues/ Active mailing list [email protected]

GMOD/Apollo: Apollo2.0.6(JB#29795a1bbb)

Apollo 2.0.6 Official Release Some of the new features include: Numerous UI and performance improvements, including a new icon (button) on the Annotator Panel to toggle the display of JBrowse native tracks. Some important bug fixes: Transcripts of pseudogenes should NOT have the word 'transcript' or other type in the name. Problems loading list of Tracks when switching organisms on slower connections. Fixed naming of transcripts under various scenarios. The complete change log can be found at: https://github.com/GMOD/Apollo/blob/master/ChangeLog.md Please review the documentation pages for more details: http://genomearchitect.readthedocs.io/en/stable/ Note: You can find a guide upgrading existing Apollo installations here: http://genomearchitect.readthedocs.io/en/stable/Migration.html Please open a GitHub issue if you find any problems: https://github.com/GMOD/Apollo/issues/ Active mailing list ([email protected]) and archive