Separation of Variables and the Computation of Fourier Transforms on Finite Groups, II

We present a general diagrammatic approach to the construction of efficient algorithms for computing the Fourier transform of a function on a finite group. By extending work which connects Bratteli diagrams to the construction of Fast Fourier Transform algorithms %\cite{sovi}, we make explicit use of the path algebra connection to the construction of Gel'fand-Tsetlin bases and work in the setting of quivers. We relate this framework to the construction of a {\em configuration space} derived from a Bratteli diagram. In this setting the complexity of an algorithm for computing a Fourier transform reduces to the calculation of the dimension of the associated configuration space. Our methods give improved upper bounds for computing the Fourier transform for the general linear groups over finite fields, the classical Weyl groups, and homogeneous spaces of finite groups, while also recovering the best known algorithms for the symmetric group and compact Lie groups.Comment: 53 pages, 5 appendices, 34 figure

Computing Isotypic Projections with the Lanczos Iteration

When the isotypic subspaces of a representation are viewed as the eigenspaces of a symmetric linear transformation, isotypic projections may be achieved as eigenspace projections and computed using the Lanczos iteration. In this paper, we show how this approach gives rise to an efficient isotypic projection method for permutation representations of distance transitive graphs and the symmetric group

A Wide Bandwidth Model for the Electrical Impedance of Magnetic BearingS

Magnetic bearings are often designed using magnetic circuit theory. When these bearings are built, however, effects not included in the usual circuit theory formulation have a significant influence on bearing performance. Two significant sources of error in the circuit theory approach are the neglect of leakage and fringing effects and the neglect of eddy current effects. This work formulates an augmented circuit model in which eddy current and flux leakage and fringing effects are included. Through the use of this model, eddy current power losses and actuator bandwidth can be derived. Electrical impedance predictions from the model are found to be in good agreement with experimental data from a typical magnetic bearing

Spectral Analysis of the Supreme Court

The focus of this paper is the linear algebraic framework in which the spectral analysis of voting data like that above is carried out. As we will show, this framework can be used to pinpoint voting coalitions in small voting bodies like the United States Supreme Court. Our goal is to show how simple ideas from linear algebra can come together to say something interesting about voting. And what could be more simple than where our story begins— with counting

An evaluation of GO annotation retrieval for BioCreAtIvE and GOA

from A critical assessment of text mining methods in molecular biolog

Structural Organization and Dynamics of Homodimeric Cytohesin Family Arf GTPase Exchange Factors in Solution and on Membranes

Membrane dynamic processes require Arf GTPase activation by guanine nucleotide exchange factors (GEFs) with a Sec7 domain. Cytohesin family Arf GEFs function in signaling and cell migration through Arf GTPase activation on the plasma membrane and endosomes. In this study, the structural organization of two cytohesins (Grp1 and ARNO) was investigated in solution by size exclusion-small angle X-ray scattering and negative stain-electron microscopy and on membranes by dynamic light scattering, hydrogen-deuterium exchange-mass spectrometry and guanosine diphosphate (GDP)/guanosine triphosphate (GTP) exchange assays. The results suggest that cytohesins form elongated dimers with a central coiled coil and membrane-binding pleckstrin-homology (PH) domains at opposite ends. The dimers display significant conformational heterogeneity, with a preference for compact to intermediate conformations. Phosphoinositide-dependent membrane recruitment is mediated by one PH domain at a time and alters the conformational dynamics to prime allosteric activation by Arf-GTP. A structural model for membrane targeting and allosteric activation of full-length cytohesin dimers is discussed

An all-out test to determine finger flexor critical force in rock climbers

Results: The ff-CF protocol resulted in the same force decay to a plateau seen in previous isometric critical torque and critical force tests. Linear regression analysis, adjusting for sex, revealed that CF% body mass explained 61% of sport and 26% of bouldering performance and W’ per kg body mass explained 7% sport and 34% bouldering performance. A combined model of CF% body mass and W’ per kg body mass, after adjustment for sex differences was able to explain 66% of sport climbing and 44% of bouldering performance. Conclusions: The results illustrate the relevance of the CF threshold in describing the fatigue resistance of the finger flexors of rock climbers. Given ff-CF ability to describe a considerable proportion of variance in sport climbing and bouldering ability we expect it to become a common test used by coaches for understanding exercise tolerance and for determining optimal training prescription

Proceedings from the Turner Resource Network symposium: The crossroads of health care research and health care delivery

Turner syndrome, a congenital condition that affects ∼1/2,500 births, results from absence or structural alteration of the second sex chromosome. There has been substantial effort by numerous clinical and genetic research groups to delineate the clinical, pathophysiological, cytogenetic, and molecular features of this multisystem condition. Questions about the molecular-genetic and biological basis of many of the clinical features remain unanswered, and health care providers and families seek improved care for affected individuals. The inaugural “Turner Resource Network (TRN) Symposium” brought together individuals with Turner syndrome and their families, advocacy group leaders, clinicians, basic scientists, physician-scientists, trainees and other stakeholders with interest in the well-being of individuals and families living with the condition. The goal of this symposium was to establish a structure for a TRN that will be a patient-powered organization involving those living with Turner syndrome, their families, clinicians, and scientists. The TRN will identify basic and clinical questions that might be answered with registries, clinical trials, or through bench research to promote and advocate for best practices and improved care for individuals with Turner syndrome. The symposium concluded with the consensus that two rationales justify the creation of a TRN: 1. inadequate attention has been paid to the health and psychosocial issues facing girls and women who live with Turner syndrome; 2. investigations into the susceptibility to common disorders such as cardiovascular or autoimmune diseases caused by sex chromosome deficiencies will increase understanding of disease susceptibilities in the general population.Eunice Kennedy Shriver National Institute of Child Health and Human Development (U.S.) (Grant 1R13HD079209-01)March of Dimes Birth Defects FoundationAmerican Heart AssociationNational Institutes of Health (U.S.) Office of Women's HealthLeaping Butterfly MinistryTurner Syndrome Society of the United State

What is new in FungiDB: a web-based bioinformatics platform for omics-scale data analysis for fungal and oomycete species

FungiDB (https://fungidb.org) serves as a valuable online resource that seamlessly integrates genomic and related large-scale data for a wide range of fungal and oomycete species. As an integral part of the VEuPathDB Bioinformatics Resource Center (https://veupathdb.org), FungiDB continually integrates both published and unpublished data addressing various aspects of fungal biology. Established in early 2011, the database has evolved to support 674 datasets. The datasets include over 300 genomes spanning various taxa (e.g. Ascomycota, Basidiomycota, Blastocladiomycota, Chytridiomycota, Mucoromycota, as well as Albuginales, Peronosporales, Pythiales, and Saprolegniales). In addition to genomic assemblies and annotation, over 300 extra datasets encompassing diverse information, such as expression and variation data, are also available. The resource also provides an intuitive web-based interface, facilitating comprehensive approaches to data mining and visualization. Users can test their hypotheses and navigate through omics-scale datasets using a built-in search strategy system. Moreover, FungiDB offers capabilities for private data analysis via the integrated VEuPathDB Galaxy platform. FungiDB also permits genome improvements by capturing expert knowledge through the User Comments system and the Apollo genome annotation editor for structural and functional gene curation. FungiDB facilitates data exploration and analysis and contributes to advancing research efforts by capturing expert knowledge for fungal and oomycete species

InterPro, progress and status in 2005

InterPro, an integrated documentation resource of protein families, domains and functional sites, was created to integrate the major protein signature databases. Currently, it includes PROSITE, Pfam, PRINTS, ProDom, SMART, TIGRFAMs, PIRSF and SUPERFAMILY. Signatures are manually integrated into InterPro entries that are curated to provide biological and functional information. Annotation is provided in an abstract, Gene Ontology mapping and links to specialized databases. New features of InterPro include extended protein match views, taxonomic range information and protein 3D structure data. One of the new match views is the InterPro Domain Architecture view, which shows the domain composition of protein matches. Two new entry types were introduced to better describe InterPro entries: these are active site and binding site. PIRSF and the structure-based SUPERFAMILY are the latest member databases to join InterPro, and CATH and PANTHER are soon to be integrated. InterPro release 8.0 contains 11 007 entries, representing 2573 domains, 8166 families, 201 repeats, 26 active sites, 21 binding sites and 20 post-translational modification sites. InterPro covers over 78% of all proteins in the Swiss-Prot and TrEMBL components of UniProt. The database is available for text- and sequence-based searches via a webserver (http://www.ebi.ac.uk/interpro), and for download by anonymous FTP (ftp://ftp.ebi.ac.uk/pub/databases/interpro)