Now showing items 1-11 of 11

    • The 3rd DBCLS BioHackathon: improving life science data integration with Semantic Web technologies 

      Katayama, Toshiaki; Wilkinson, Mark D; Micklem, Gos; Kawashima, Shuichi; Yamaguchi, Atsuko; Nakao, Mitsuteru; Yamamoto, Yasunori et al. (2013-02-11)
      Abstract Background BioHackathon 2010 was the third in a series of meetings hosted by the Database Center for Life Sciences (DBCLS) in Tokyo, Japan. The overall goal of the BioHackathon series is to improve the quality and ...
    • Empirical Bayes method for reducing false discovery rates of correlation matrices with block diagonal structure 

      Pacini, Clare; Ajioka, James W; Micklem, Gos (2017-04-12)
      Abstract Background Correlation matrices are important in inferring relationships and networks between regulatory or signalling elements in biological systems. With currently ...
    • Empirical Bayes method for reducing false discovery rates of correlation matrices with block diagonal structure 

      Pacini, Clare; Ajioka, JW; Micklem, Gos (BioMed Central, 2017-04-12)
      $\textbf{Background:}$ Correlation matrices are important in inferring relationships and networks between regulatory or signalling elements in biological systems. With currently available technology sample sizes for ...
    • esyN: Network Building, Sharing and Publishing 

      Bean, Daniel M; Heimbach, Joshua; Ficorella, Lorenzo; Micklem, Gos; Oliver, Stephen George; Favrin, Giorgio (PLOS, 2014-09-02)
      The construction and analysis of networks is increasingly widespread in biological research. We have developed esyN (“easy networks”) as a free and open source tool to facilitate the exchange of biological network ...
    • Expression of multiple horizontally acquired genes is a hallmark of both vertebrate and invertebrate genomes 

      Crisp, Alastair; Boschetti, Chiara; Perry, Malcolm; Tunnacliffe, Alan; Micklem, Gos (BioMed Central, 2015-03-13)
      Background: A fundamental concept in biology is that heritable material, DNA, is passed from parent to offspring, a process called vertical gene transfer. An alternative mechanism of gene acquisition is through horizontal ...
    • FlyMine: an integrated database for Drosophila and Anopheles genomics 

      Lyne, Rachel; Smith, Richard; Rutherford, Kim; Wakeling, Matthew; Varley, Andrew; Guillier, Francois; Janssens, Hilde et al. (2007-07-05)
      Abstract FlyMine is a data warehouse that addresses one of the important challenges of modern biology: how to integrate and make use of the diversity and volume of current biological data. Its main focus is genomic and ...
    • Identification and analysis of serpin-family genes by homology and synteny across the 12 sequenced Drosophilid genomes 

      Garrett, Matthew; Fullaondo, Ane; Troxler, Laurent; Micklem, Gos; Gubb, David (2009-10-22)
      Abstract Background The Drosophila melanogaster genome contains 29 serpin genes, 12 as single transcripts and 17 within 6 gene clusters. Many of these serpins have a conserved "hinge" motif characteristic of active proteinase ...
    • The impact of quantitative optimization of hybridization conditions on gene expression analysis 

      Sykacek, Peter; Kreil, David P; Meadows, Lisa A; Auburn, Richard P; Fischer, Bettina; Russell, Steven; Micklem, Gos (2011-03-14)
      Abstract Background With the growing availability of entire genome sequences, an increasing number of scientists can exploit oligonucleotide microarrays for genome-scale expression studies. While probe-design is a major ...
    • Insights into electrosensory organ development, physiology and evolution from a lateral line-enriched transcriptome 

      Modrell, MS; Lyne, M; Carr, AR; Zakon, HH; Buckley, D; Campbell, AS; Davis, MC et al. (eLife Sciences Publications Ltd, 2017-03-27)
      The anamniote lateral line system, comprising mechanosensory neuromasts and electrosensory ampullary organs, is a useful model for investigating the developmental and evolutionary diversification of different organs and ...
    • Multiple functionally divergent and conserved copies of alpha tubulin in bdelloid rotifers 

      Eyres, Isobel; Frangedakis, Eftychios; Fontaneto, Diego; Herniou, Elisabeth A; Boschetti, Chiara; Carr, Adrian; Micklem, Gos et al. (2012-08-17)
      AbstractBackgroundBdelloid rotifers are microscopic animals that have apparently survived without sex for millions of years and are able to survive desiccation at all life stages through a process called anhydrobiosis. ...
    • Urinary Exosomes Contain MicroRNAs Capable of Paracrine Modulation of Tubular Transporters in Kidney 

      Gracia, T; Wang, X; Su, Ya; Norgett, Elizabeth Emma; Williams, Timothy Lee; Moreno, P; Micklem, Gos et al. (Nature Publishing Group, 2017-01-17)
      Exosomes derived from all nephron segments are present in human urine, where their functionality is incompletely understood. Most studies have focused on biomarker discovery rather than exosome function. Through sequencing ...