Literature DB >> 15256416

Importing MAGE-ML format microarray data into BioConductor.

Steffen Durinck1, Joke Allemeersch, Vincent J Carey, Yves Moreau, Bart De Moor.   

Abstract

UNLABELLED: The microarray gene expression markup language (MAGE-ML) is a widely used XML (eXtensible Markup Language) standard for describing and exchanging information about microarray experiments. It can describe microarray designs, microarray experiment designs, gene expression data and data analysis results. We describe RMAGEML, a new Bioconductor package that provides a link between cDNA microarray data stored in MAGE-ML format and the Bioconductor framework for preprocessing, visualization and analysis of microarray experiments. AVAILABILITY: http://www.bioconductor.org. Open Source.

Mesh:

Year:  2004        PMID: 15256416     DOI: 10.1093/bioinformatics/bth396

Source DB:  PubMed          Journal:  Bioinformatics        ISSN: 1367-4803            Impact factor:   6.937


  7 in total

1.  AllerML: markup language for allergens.

Authors:  Ovidiu Ivanciuc; Steven M Gendel; Trevor D Power; Catherine H Schein; Werner Braun
Journal:  Regul Toxicol Pharmacol       Date:  2011-03-21       Impact factor: 3.271

2.  OnionTree XML: a format to exchange gene-related probabilities.

Authors:  Alexander Favorov; Dmitrijs Lvovs; William Speier; Giovanni Parmigiani; Michael F Ochs
Journal:  J Biomol Struct Dyn       Date:  2011-10

3.  Plant-based microarray data at the European Bioinformatics Institute. Introducing AtMIAMExpress, a submission tool for Arabidopsis gene expression data to ArrayExpress.

Authors:  Gaurab Mukherjee; Niran Abeygunawardena; Helen Parkinson; Sergio Contrino; Steffen Durinck; Anna Farne; Ele Holloway; Per Lilja; Yves Moreau; Ahmet Oezcimen; Tim Rayner; Anjan Sharma; Alvis Brazma; Ugis Sarkans; Mohammadreza Shojatalab
Journal:  Plant Physiol       Date:  2005-10       Impact factor: 8.340

4.  Importing ArrayExpress datasets into R/Bioconductor.

Authors:  Audrey Kauffmann; Tim F Rayner; Helen Parkinson; Misha Kapushesky; Margus Lukk; Alvis Brazma; Wolfgang Huber
Journal:  Bioinformatics       Date:  2009-06-08       Impact factor: 6.937

5.  Managing and querying gene expression data using Curray.

Authors:  Hasan Jamil; Aminul Islam
Journal:  BMC Proc       Date:  2011-05-28

6.  A software framework for microarray and gene expression object model (MAGE-OM) array design annotation.

Authors:  Matloob Qureshi; Alasdair Ivens
Journal:  BMC Genomics       Date:  2008-03-20       Impact factor: 3.969

7.  A Field Study in Benin to Investigate the Role of Mosquitoes and Other Flying Insects in the Ecology of Mycobacterium ulcerans.

Authors:  Barnabas Zogo; Armel Djenontin; Kevin Carolan; Jeremy Babonneau; Jean-François Guegan; Sara Eyangoh; Estelle Marion
Journal:  PLoS Negl Trop Dis       Date:  2015-07-21
  7 in total

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