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List of works by Kristof Engelen

1alpha,25-Dihydroxyvitamin D3-induced down-regulation of the checkpoint proteins, Chk1 and Claspin, is mediated by the pocket proteins p107 and p130.

scientific article published on 22 December 2006

A Comparative Transcriptome Analysis of Rhizobium etli Bacteroids: Specific Gene Expression During Symbiotic Nongrowth

article

A nonlinear mixed-effects model for estimating calibration intervals for unknown concentrations in two-color microarray data with spike-ins

scientific article

Alternative experimental design with an applied normalization scheme can improve statistical power in 2D-DIGE experiments.

scientific article published in October 2010

Balancing false positives and false negatives for the detection of differential expression in malignancies.

scientific article published on September 2004

CALIB: a Bioconductor package for estimating absolute expression levels from two-color microarray data.

scientific article

COLOMBOS v2.0: an ever expanding collection of bacterial expression compendia

scientific article

COLOMBOS v3.0: leveraging gene expression compendia for cross-species analyses

scientific article published on 19 November 2015

COLOMBOS: Access Port for Cross-Platform Bacterial Expression Compendia ⬇️

scientific article published on July 14, 2011

COMODO: an adaptive coclustering strategy to identify conserved coexpression modules between organisms.

scientific article

Canonical and non-canonical EcfG sigma factors control the general stress response in Rhizobium etli

scientific article published on 28 October 2013

Characterization of the condensin component Cnap1 and protein kinase Melk as novel E2F target genes down-regulated by 1,25-dihydroxyvitamin D3.

scientific article

Comparative analysis of gene expression: uncovering expression conservation and divergence between Salmonella enterica serovar Typhimurium strains LT2 and 14028S.

scientific article published in January 2015

DISTILLER: a data integration framework to reveal condition dependency of complex regulons in Escherichia coli

scientific article

DNA structural properties in the classification of genomic transcription regulation elements

scientific article published on 02 July 2012

Delineation of the Salmonella enterica serovar Typhimurium HilA regulon through genome-wide location and transcript analysis

scientific article published on 04 May 2007

Directed module detection in a large-scale expression compendium

scientific article published on 01 January 2012

Discovering transcriptional modules from motif, chip-chip and microarray data.

scientific article

Draft Genome Sequence of Lysobacter capsici AZ78, a Bacterium Antagonistic to Plant-Pathogenic Oomycetes.

scientific article published on 24 April 2014

Evaluation of time profile reconstruction from complex two-color microarray designs

scientific article

Evolution of Intra-specific Regulatory Networks in a Multipartite Bacterial Genome

scientific article published on 4 September 2015

Expression divergence between Escherichia coli and Salmonella enterica serovar Typhimurium reflects their lifestyles

scientific article published on 20 February 2013

Expression profiling to predict the clinical behaviour of ovarian cancer fails independent evaluation

scientific article

Genome-wide detection of predicted non-coding RNAs in Rhizobium etli expressed during free-living and host-associated growth using a high-resolution tiling array

scientific article

Genome-wide expression analysis reveals TORC1-dependent and -independent functions of Sch9.

scientific article published on 28 August 2008

Identifying differentially expressed genes in the absence of replication.

scientific article published in January 2013

Inferring the transcriptional network of Bacillus subtilis

scientific article published on 28 July 2009

Inferring transcriptional modules from ChIP-chip, motif and microarray data

scientific article

Joint mapping of genes and conditions via multidimensional unfolding analysis

scientific article

MAGIC: access portal to a cross-platform gene expression compendium for maize.

scientific article published on 8 January 2014

MARAN: normalizing micro-array data ⬇️

scientific article published on May 1, 2003

Meta Analysis of Gene Expression Data within and Across Species

scientific article

Microarray analysis and motif detection reveal new targets of the Salmonella enterica serovar Typhimurium HilA regulatory protein, including hilA itself.

scientific article

Microarray analysis of MCF-7 breast cancer cells treated with 1,25-dihydroxyvitamin D3 or a 17-methyl-D-ring analog.

scientific article

PKA and Sch9 control a molecular switch important for the proper adaptation to nutrient availability.

scientific article

Phenotypical and molecular responses of Arabidopsis thaliana roots as a result of inoculation with the auxin-producing bacterium Azospirillum brasilense

scientific article

Predicting the clinical behavior of ovarian cancer from gene expression profiles.

scientific article published in January 2006

Query-based biclustering of gene expression data using Probabilistic Relational Models.

scientific article

Stress response regulators identified through genome-wide transcriptome analysis of the (p)ppGpp-dependent response in Rhizobium etli

scientific article

Structural properties of prokaryotic promoter regions correlate with functional features

scientific article

The AI-2-dependent regulator LsrR has a limited regulon in Salmonella Typhimurium

scientific article published on 13 July 2010

The Effect of a Sertoli Cell-Selective Knockout of the Androgen Receptor on Testicular Gene Expression in Prepubertal Mice

article

The condition-dependent transcriptional network in Escherichia coli

scientific article published in March 2009

The potential for pathogenicity was present in the ancestor of the Ascomycete subphylum Pezizomycotina

scientific article

Transcriptome analysis of the rhizosphere bacterium Azospirillum brasilense reveals an extensive auxin response

scientific article

Use of structural DNA properties for the prediction of transcription-factor binding sites in Escherichia coli

scientific article published on 4 November 2010

Using ribosomal protein genes as reference: a tale of caution

scientific article (publication date: 2008)

ViTraM: visualization of transcriptional modules

scientific article published on 8 July 2009

Whole-genome comparative analysis of virulence genes unveils similarities and differences between endophytes and other symbiotic bacteria

scientific article published on 26 May 2015

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