Literature DB >> 15130795

MicroPreP: a cDNA microarray data pre-processing framework.

Sacha A F T van Hijum1, Jorge García de la Nava, Oswaldo Trelles, Jan Kok, Oscar P Kuipers.   

Abstract

The user-friendly MicroPreP framework was developed to transform raw intensity data from cDNA microarrays into high-quality data. The main features of this software are: LOWESS normalisation; merging of DNA microarray data from changing slide versions; outlier detection; and slide quality assessment.

Mesh：

Year:  2003        PMID： 15130795

Source DB:  PubMed          Journal:  Appl Bioinformatics        ISSN： 1175-5636


  63 in total

1.  A specific mutation in the promoter region of the silent cel cluster accounts for the appearance of lactose-utilizing Lactococcus lactis MG1363.

Authors:  Ana Solopova; Herwig Bachmann; Bas Teusink; Jan Kok; Ana Rute Neves; Oscar P Kuipers
Journal:  Appl Environ Microbiol       Date:  2012-06-01       Impact factor: 4.792

2.  Sialic acid-mediated gene expression in Streptococcus pneumoniae and role of NanR as a transcriptional activator of the nan gene cluster.

Authors:  Muhammad Afzal; Sulman Shafeeq; Hifza Ahmed; Oscar P Kuipers
Journal:  Appl Environ Microbiol       Date:  2015-02-27       Impact factor: 4.792

3.  Expression of transcription activator ComK of Bacillus subtilis in the heterologous host Lactococcus lactis leads to a genome-wide repression pattern: a case study of horizontal gene transfer.

Authors:  Kim A Susanna; Chris D den Hengst; Leendert W Hamoen; Oscar P Kuipers
Journal:  Appl Environ Microbiol       Date:  2006-01       Impact factor: 4.792

4.  GlnR-mediated regulation of nitrogen metabolism in Lactococcus lactis.

Authors:  Rasmus Larsen; Tomas G Kloosterman; Jan Kok; Oscar P Kuipers
Journal:  J Bacteriol       Date:  2006-07       Impact factor: 3.490

5.  Comparative analyses of prophage-like elements present in two Lactococcus lactis strains.

Authors:  Marco Ventura; Aldert Zomer; Carlos Canchaya; Mary O'Connell-Motherway; Oscar Kuipers; Francesca Turroni; Angela Ribbera; Elena Foroni; Girbe Buist; Udo Wegmann; Claire Shearman; Michael J Gasson; Gerald F Fitzgerald; Jan Kok; Douwe van Sinderen
Journal:  Appl Environ Microbiol       Date:  2007-10-12       Impact factor: 4.792

6.  A Fast and Reliable Pipeline for Bacterial Transcriptome Analysis Case study: Serine-dependent Gene Regulation in Streptococcus pneumoniae.

Authors:  Muhammad Afzal; Irfan Manzoor; Oscar P Kuipers
Journal:  J Vis Exp       Date:  2015-04-25       Impact factor: 1.355

7.  Transcriptome analysis reveals mechanisms by which Lactococcus lactis acquires nisin resistance.

Authors:  Naomi E Kramer; Sacha A F T van Hijum; Jan Knol; Jan Kok; Oscar P Kuipers
Journal:  Antimicrob Agents Chemother       Date:  2006-05       Impact factor: 5.191

8.  Molecular and metabolic adaptations of Lactococcus lactis at near-zero growth rates.

Authors:  Onur Ercan; Michiel Wels; Eddy J Smid; Michiel Kleerebezem
Journal:  Appl Environ Microbiol       Date:  2014-10-24       Impact factor: 4.792

9.  Metabolism of sialic acid by Bifidobacterium breve UCC2003.

Authors:  Muireann Egan; Mary O'Connell Motherway; Marco Ventura; Douwe van Sinderen
Journal:  Appl Environ Microbiol       Date:  2014-05-09       Impact factor: 4.792

10.  Identification of genetic loci in Lactobacillus plantarum that modulate the immune response of dendritic cells using comparative genome hybridization.

Authors:  Marjolein Meijerink; Saskia van Hemert; Nico Taverne; Michiel Wels; Paul de Vos; Peter A Bron; Huub F Savelkoul; Jolanda van Bilsen; Michiel Kleerebezem; Jerry M Wells
Journal:  PLoS One       Date:  2010-05-13       Impact factor: 3.240
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