K. Engelen

发表

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

J. Winderickx, B. De Moor, K. Marchal, 2006, Genome Biology.

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

J. Collado-Vides, T. D. Bie, B. De Moor, 2009 .

DNA Structural Properties in the Classification of Genomic Transcription Regulation Elements

Kathleen Marchal, Kristof Engelen, Pieter Meysman, 2012, Bioinformatics and biology insights.

Meta Analysis of Gene Expression Data within and Across Species

Y. van de Peer, K. Marchal, K. Engelen, 2008, Current genomics.

Insights into the Role of the Berry-Specific Ethylene Responsive Factor VviERF045

Kristof Engelen, Claudio Moser, Domenico Masuero, 2016, Frontiers in plant science.

VESPUCCI: Exploring Patterns of Gene Expression in Grapevine

Kristof Engelen, Claudio Moser, Marco Moretto, 2016, Front. Plant Sci..

Transcriptome Analysis of the Rhizosphere Bacterium Azospirillum brasilense Reveals an Extensive Auxin Response

K. Marchal, K. Engelen, J. Vanderleyden, 2011, Microbial Ecology.

The grapevine VvibZIPC22 transcription factor is involved in the regulation of flavonoid biosynthesis

K. Engelen, G. Malacarne, C. Moser, 2016, Journal of experimental botany.

Microarray Analysis and Motif Detection Reveal New Targets of the Salmonella enterica Serovar Typhimurium HilA Regulatory Protein, Including hilA Itself

K. Marchal, K. Engelen, S. D. De Keersmaecker, 2005, Journal of bacteriology.

Directed module detection in a large-scale expression compendium.

K. Marchal, Hong Sun, P. Meysman, 2012, Methods in molecular biology.

Inferring the transcriptional network of Bacillus subtilis.

K. Marchal, Karen Lemmens, P. Monsieurs, 2009, Molecular bioSystems.

COLOMBOS: Access Port for Cross-Platform Bacterial Expression Compendia

K. Marchal, P. Meysman, Karen Lemmens, 2011, PloS one.

Computational biology and toxicogenomics

B. Moor, K. Marchal, K. Engelen, 2004 .

Using Ribosomal Protein Genes as Reference: A Tale of Caution

I. van Mechelen, Y. Moreau, K. Marchal, 2008, PloS one.

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

K. Engelen, M. Moretto, P. Sonego, 2015, Front. Microbiol..

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

Kathleen Marchal, Kristof Engelen, Kris Laukens, 2010, Journal of proteome research.

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

K. Marchal, K. Braeken, M. Fauvart, 2011, Genome Biology.

Systems Biology. Come Forth

Bart De Moor, Kristof Engelen, Bert Coessens, 2007 .

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

Kathleen Marchal, Kristof Engelen, J. Winderickx, 2008, FEMS yeast research.

Structural Properties of Prokaryotic Promoter Regions Correlate with Functional Features

J. Collado-Vides, K. Laukens, P. Meysman, 2014, PloS one.

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

Kathleen Marchal, Thanh Hai Dang, Yan Wu, 2010, Nucleic Acids Res..

DISCOVERING REGULATORY MODULES FROM HETEROGENEOUS INFORMATION SOURCES

B. Moor, T. D. Bie, K. Marchal, 2004 .

Pacific Symposium on Biocomputing (PSB)

Nello Cristianini, Kathleen Marchal, Kristof Engelen, 2005 .

PulmonDB: a curated lung disease gene expression database

Luis A. Aguilar, J. Collado-Vides, J. García-Sotelo, 2019, Scientific Reports.

Dual Transcriptome and Metabolic Analysis of Vitis vinifera cv. Pinot Noir Berry and Botrytis cinerea During Quiescence and Egressed Infection

K. Engelen, G. Malacarne, M. Moretto, 2020, Frontiers in Plant Science.

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

K. Marchal, K. Engelen, R. Bouillon, 2007, The Journal of Steroid Biochemistry and Molecular Biology.

Characterization of the Condensin Component Cnap1 and Protein Kinase Melk as Novel E2F Target Genes Down-regulated by 1,25-Dihydroxyvitamin D3*

B. De Moor, K. Marchal, M. Bollen, 2005, Journal of Biological Chemistry.

Molecular analysis of the early interaction between the grapevine flower and Botrytis cinerea reveals that prompt activation of specific host pathways leads to fungus quiescence.

K. Engelen, G. Malacarne, C. Moser, 2017, Plant, cell & environment.

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

B. De Moor, K. Marchal, K. Engelen, 2009, Anticancer research.

A comparative transcriptome analysis of Rhizobium etli bacteroids: specific gene expression during symbiotic nongrowth.

K. Marchal, K. Braeken, M. Fauvart, 2011, Molecular plant-microbe interactions : MPMI.

Time-Course Transcriptome Analysis of Arabidopsis Siliques Discloses Genes Essential for Fruit Development and Maturation1

S. Masiero, K. Engelen, P. Pesaresi, 2018, Plant Physiology.

Characterizing the interaction between Botrytis cinerea and grapevine inflorescences

K. Engelen, C. Moser, P. Tudzynski, 2016 .

Ethylene-auxin crosstalk regulates postharvest fruit ripening process in apple

F. Biasioli, P. Fontana, K. Engelen, 2021, Fruit Research.

The effect of a sertoli cell-selective knockout of the androgen receptor on testicular gene expression in prepubertal mice.

R. Sharpe, K. Marchal, K. Engelen, 2006, Molecular endocrinology.

Inferring gene expression from ribosomal promoter sequences, a crowdsourcing approach

Pablo Meyer, Raquel Norel, Eran Segal, 2013, Genome research.

Abscisic Acid Is a Major Regulator of Grape Berry Ripening Onset: New Insights into ABA Signaling Network

C. Tonelli, K. Engelen, M. Moretto, 2017, Front. Plant Sci..

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

Kathleen Marchal, Janick Mathys, Kristof Engelen, 2004, Molecular microbiology.

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

Y. van de Peer, K. Marchal, K. Engelen, 2010, BMC Evolutionary Biology.

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

K. Marchal, M. Fauvart, J. Michiels, 2010, BMC Genomics.

The Lysobacter capsici AZ78 Genome Has a Gene Pool Enabling it to Interact Successfully with Phytopathogenic Microorganisms and Environmental Factors

K. Engelen, M. Perazzolli, M. Moretto, 2016, Front. Microbiol..

Transcriptome Profiles of Strawberry (Fragaria vesca) Fruit Interacting With Botrytis cinerea at Different Ripening Stages

K. Engelen, M. Moretto, C. Moser, 2019, Front. Plant Sci..

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

B. De Moor, K. Marchal, K. Engelen, 2010, Nucleic acids research.

A COMPASS for VESPUCCI: A FAIR Way to Explore the Grapevine Transcriptomic Landscape

J. T. Matus, K. Engelen, G. Malacarne, 2022, Frontiers in Plant Science.

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

Kathleen Marchal, Qiang Fu, Luca Bianco, 2013, Nucleic Acids Res..

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

Kathleen Marchal, Gilles Bernot, Kristof Engelen, 2008, BMC Bioinformatics.

COMPARISON OF DIFFERENT METHODOLOGIES TO IDENTIFY DIFFERENTIALLY EXPRESSED GENES IN TWO-SAMPLE cDNA MICROARRAYS

Kathleen Marchal, Bart De Moor, Stein Aerts, 2002 .

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

K. Marchal, K. Engelen, J. Vanderleyden, 2014, The New phytologist.

INCLUSive: a web portal and service registry for microarray and regulatory sequence analysis

Kathleen Marchal, Bart De Moor, Yves Moreau, 2003, Nucleic Acids Res..

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

Chiara Romualdi, Luca Bianco, Julio Collado-Vides, 2015, Nucleic Acids Res..

Expression Divergence between Escherichia coli and Salmonella enterica serovar Typhimurium Reflects Their Lifestyles

Kathleen Marchal, Kristof Engelen, Pieter Meysman, 2013, Molecular biology and evolution.

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

Matteo Brilli, Alessio Mengoni, Marco Bazzicalupo, 2015, PLoS Comput. Biol..

Complete genome sequence of Bacillus amyloliquefaciens subsp. plantarum S499, a rhizobacterium that triggers plant defences and inhibits fungal phytopathogens.

K. Engelen, M. Moretto, P. Sonego, 2016, Journal of biotechnology.

Delineation of the Salmonella enterica Serovar Typhimurium HilA Regulon through Genome-Wide Location and Transcript Analysis

Kathleen Marchal, Hui Zhao, Kristof Engelen, 2007, Journal of bacteriology.

Discovering Candidates for Gene Network Expansion by Distributed Volunteer Computing

Enrico Blanzieri, Paolo Morettin, Francesco Asnicar, 2015, 2015 IEEE Trustcom/BigDataSE/ISPA.

The genome sequence and transcriptome of Potentilla micrantha and their comparison to Fragaria vesca (the woodland strawberry)

M. Borodovsky, A. Lomsadze, D. Sargent, 2017, GigaScience.

MARAN: Normalizing Micro-array Data

Kathleen Marchal, Bart De Moor, Kristof Engelen, 2003, Bioinform..

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

M. Fauvart, J. Michiels, K. Engelen, 2013, MicrobiologyOpen.

A Nonlinear Mixed-Effects Model for Estimating Calibration Intervals for Unknown Concentrations in Two-Color Microarray Data with Spike-Ins

Kathleen Marchal, Geert Verbeke, Kristof Engelen, 2009, Statistical applications in genetics and molecular biology.

Statistical Applications in Genetics and Molecular Biology A Nonlinear Mixed-Effects Model for Estimating Calibration Intervals for Unknown Concentrations in Two-Color Microarray Data with Spike

G. Verbeke, K. Marchal, K. Engelen, 2011 .

Discovering Transcriptional Modules from Motif, Chip-Chip and Microarray Data

Nello Cristianini, Kathleen Marchal, Bart De Moor, 2004, Pacific Symposium on Biocomputing.

Dual RNA‐Seq of Lysobacter capsici AZ78 – Phytophthora infestans interaction shows the implementation of attack strategies by the bacterium and unsuccessful oomycete defense responses

K. Engelen, M. Perazzolli, M. Moretto, 2017, Environmental microbiology.

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

J. Collado-Vides, B. De Moor, K. Marchal, 2009, Genome Biology.

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

Lore Cloots, Kathleen Marchal, Hui Zhao, 2011, BMC Bioinformatics.

ViTraM: visualization of transcriptional modules.

Kathleen Marchal, Hong Sun, Bart De Moor, 2009 .

Layout and Post-Processing of Transcriptional Modules

Kathleen Marchal, Hong Sun, Bart De Moor, 2009, 2009 International Joint Conference on Bioinformatics, Systems Biology and Intelligent Computing.

Identifying differentially expressed genes in the absence of replication

Kathleen Marchal, Geert Verbeke, Dan Lin, 2013, Int. J. Bioinform. Res. Appl..

Practical Approaches for Mining Frequent Patterns in Molecular Datasets

Bart Goethals, Kris Laukens, Sandy Moens, 2016, Bioinformatics and biology insights.

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

Olivier Gevaert, Dirk Timmerman, Kristof Engelen, 2008, BMC Cancer.

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

K. Engelen, P. Sonego, I. Pertot, 2014, Genome Announcements.

NES2RA: network expansion by stratified variable subsetting and ranking aggregation

Enrico Blanzieri, Paolo Morettin, Francesco Asnicar, 2018 .

Efficient query-driven biclustering of gene expression data using Probabilistic Relational Models

Tim Van den Bulcke, B. Moor, T. Michoel, 2008 .

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

K. Marchal, K. Engelen, I. Thijs, 2010, Cell Research.

Discovering candidates for gene network expansion by variable subsetting and ranking aggregation

F. Asnicar, E. Blanzieri, K. Engelen, 2015 .