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Kathleen Marchal

Research Profile

Devices

Oligonucleotide Array Sequence Analysis

Procedures

Gene Expression Profiling

Concepts & Ideas

Physiology

Activities & Behaviors

Chemicals & Drugs

Occupations

Computational Biology

Genes & Molecular Sequences

Living Beings

Salmonella typhimurium

Co-author Network

Publications

TOP 3
Pieter Meysman; Aminael Sánchez-Rodríguez; Qiang Fu; Kathleen Marchal; Kristof Engelen
Expression Divergence between Escherichia coli and Salmonella enterica serovar Typhimurium Reflects Their Lifestyles.
Lieven P C Verbeke; Lore Cloots; Piet Demeester; Jan Fostier; Kathleen Marchal
EPSILON: an eQTL prioritization framework using similarity measures derived from local networks.
Elham Aslankoohi; Kathleen Marchal; Aminael Sanchez-Rodriguez; Hong Sun; Elisa van der Zande; Karin Voordeckers; Kevin J Verstrepen
Nucleosomes affect local transformation efficiency.

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All Publications

2013: Pieter Meysman; Aminael Sánchez-Rodríguez; Qiang Fu; Kathleen Marchal; Kristof Engelen
Expression Divergence between Escherichia coli and Salmonella enterica serovar Typhimurium Reflects Their Lifestyles.
Molecular biology and evolution 2013;30(6):1302-14.
2013: Lieven P C Verbeke; Lore Cloots; Piet Demeester; Jan Fostier; Kathleen Marchal
EPSILON: an eQTL prioritization framework using similarity measures derived from local networks.
Bioinformatics (Oxford, England) 2013;29(10):1308-16.
2012: Elham Aslankoohi; Kathleen Marchal; Aminael Sanchez-Rodriguez; Hong Sun; Elisa van der Zande; Karin Voordeckers; Kevin J Verstrepen
Nucleosomes affect local transformation efficiency.
Nucleic acids research 2012;40(19):9506-12.
2012: Karin Voordeckers; Marcelo D Vinces; Lore Cloots; Dries De Maeyer; Kathleen Marchal; Wim Meert; Owen Ryan; Elisa van der Zande; Kevin J Verstrepen
Identification of a complex genetic network underlying Saccharomyces cerevisiae colony morphology.
Molecular microbiology 2012;86(1):225-39.
2012: Marleen Claeys; Tom Michoel; Valerie Storms; Hong Sun; Kathleen Marchal
MotifSuite: workflow for probabilistic motif detection and assessment.
Bioinformatics (Oxford, England) 2012;28(14):1931-2.
2012: Hong Sun; Lieven Thorrez; Ana Carolina Fierro; Tias Guns; Siegfried Nijssen; Kathleen Marchal
Unveiling combinatorial regulation through the combination of ChIP information and in silico cis-regulatory module detection.
Nucleic acids research 2012;40(12):e90.
2012: Pieter Meysman; Kathleen Marchal; Kristof Engelen
DNA structural properties in the classification of genomic transcription regulation elements.
Bioinformatics and biology insights 2012;6():155-68.
2012: Hanne L P Tytgat; Jos Vanderleyden; Tine L A Verhoeven; Sigrid C J De Keersmaecker; Kathleen Marchal; Aminael Sánchez-Rodríguez; Geert Schoofs; Sarah Lebeer
A combined approach to study the protein glycosylation potential of Lactobacillus rhamnosus GG (LGG).
Communications in agricultural and applied biological sciences 2012;77(1):15-9.
2012: Qiang Fu; Karen Lemmens; Kristof Engelen; Ana Carolina Fierro; Pieter Meysman; Aminael Sanchez-Rodriguez; Hong Sun; Inge M V Thijs; Kathleen Marchal
Directed module detection in a large-scale expression compendium.
Methods in molecular biology (Clifton, N.J.) 2012;804():131-65.
2011: Maarten Vercruysse; Serge Beullens; Kristien Braeken; Lore Cloots; Kristof Engelen; Maarten Fauvart; Kathleen Marchal; Jan Michiels
A comparative transcriptome analysis of Rhizobium etli bacteroids: specific gene expression during symbiotic nongrowth.
Molecular plant-microbe interactions : MPMI 2011;24(12):1553-61.
2011: Lore Cloots; Kathleen Marchal
Network-based functional modeling of genomics, transcriptomics and metabolism in bacteria.
Current opinion in microbiology 2011;14(5):599-607.
2011: Riet De Smet; Kathleen Marchal
An ensemble biclustering approach for querying gene expression compendia with experimental lists.
Bioinformatics (Oxford, England) 2011;27(14):1948-56.
2011: Maarten Fauvart; Aminael Sánchez-Rodríguez; Serge Beullens; Kathleen Marchal; Jan Michiels
Genome sequence of Rhizobium etli CNPAF512, a nitrogen-fixing symbiont isolated from bean root nodules in Brazil.
Journal of bacteriology 2011;193(12):3158-9.
2011: Sandra Van Puyvelde; Lore Cloots; Kristof Engelen; Frederik Das; Kathleen Marchal; Jos Vanderleyden; Stijn Spaepen
Transcriptome analysis of the rhizosphere bacterium Azospirillum brasilense reveals an extensive auxin response.
Microbial ecology 2011;61(4):723-8.
2011: Peyman Zarrineh; Ana C Fierro; Aminael Sánchez-Rodríguez; Bart De Moor; Kristof Engelen; Kathleen Marchal
COMODO: an adaptive coclustering strategy to identify conserved coexpression modules between organisms.
Nucleic acids research 2011;39(7):e41.
2011: Kristof Engelen; Ana Carolina Fierro; Qiang Fu; Karen Lemmens; Pieter Meysman; Aminael Sánchez-Rodríguez; Riet De Smet; Kathleen Marchal
COLOMBOS: access port for cross-platform bacterial expression compendia.
PloS one 2011;6(7):e20938.
2011: Hui Zhao; Lore Cloots; Tim Van den Bulcke; Yan Wu; Riet De Smet; Valerie Storms; Pieter Meysman; Kristof Engelen; Kathleen Marchal
Query-based biclustering of gene expression data using Probabilistic Relational Models.
BMC bioinformatics 2011;12 Suppl 1():S37.
2011: Maarten Vercruysse; Serge Beullens; Kristien Braeken; Lore Cloots; Kristof Engelen; Maarten Fauvart; Ann Jans; Kathleen Marchal; Jan Michiels
Stress response regulators identified through genome-wide transcriptome analysis of the (p)ppGpp-dependent response in Rhizobium etli.
Genome biology 2011;12(2):R17.
2010: Riet De Smet; Kathleen Marchal
Advantages and limitations of current network inference methods.
Nature reviews. Microbiology 2010;8(10):717-29.
2010: Kristof Engelen; Alejandro Sifrim; Babs Van de Plas; Kris Laukens; Lutgarde Arckens; Kathleen Marchal
Alternative experimental design with an applied normalization scheme can improve statistical power in 2D-DIGE experiments.
Journal of proteome research 2010;9(10):4919-26.
2010: Inge M V Thijs; Hui Zhao; Ami De Weerdt; Kristof Engelen; David De Coster; Geert Schoofs; Michael McClelland; Jos Vanderleyden; Kathleen Marchal; Sigrid C J De Keersmaecker
The AI-2-dependent regulator LsrR has a limited regulon in Salmonella Typhimurium.
Cell research 2010;20(8):966-9.
2010: Gwendoline Kint; Carolina Fierro; Kathleen Marchal; Jos Vanderleyden; Sigrid C J De Keersmaecker
Integration of 'omics' data: does it lead to new insights into host-microbe interactions?
Future microbiology 2010;5(2):313-28.
2010: Gwendoline Kint; David De Coster; Kathleen Marchal; Jos Vanderleyden; Sigrid C J De Keersmaecker
The small regulatory RNA molecule MicA is involved in Salmonella enterica serovar Typhimurium biofilm formation.
BMC microbiology 2010;10():276.
2010: Aminael Sánchez-Rodríguez; Cindy Martens; Kristof Engelen; Yves Van de Peer; Kathleen Marchal
The potential for pathogenicity was present in the ancestor of the Ascomycete subphylum Pezizomycotina.
BMC evolutionary biology 2010;10():318.
2010: Valerie Storms; Marleen Claeys; Aminael Sanchez; Bart De Moor; Annemieke Verstuyf; Kathleen Marchal
The effect of orthology and coregulation on detecting regulatory motifs.
PloS one 2010;5(2):e8938.
2010: Maarten Vercruysse; Maarten Fauvart; Lore Cloots; Kristof Engelen; Inge M Thijs; Kathleen Marchal; Jan Michiels
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.
BMC genomics 2010;11():53.
2009: Abeer A Fadda; Ana Carolina Fierro; Karen Lemmens; Pieter Monsieurs; Kristof Engelen; Kathleen Marchal
Inferring the transcriptional network of Bacillus subtilis.
Molecular bioSystems 2009;5(12):1840-52.
2009: Hong Sun; Karen Lemmens; Tim Van den Bulcke; Kristof Engelen; Bart De Moor; Kathleen Marchal
ViTraM: visualization of transcriptional modules.
Bioinformatics (Oxford, England) 2009;25(18):2450-1.
2009: Els Vanoirbeek; Guy Eelen; Lieve Verlinden; Kathleen Marchal; Kristof Engelen; Bart De Moor; Ine Beullens; Suzanne Marcelis; Pierre J De Clercq; Roger Bouillon; Annemieke Verstuyf
Microarray analysis of MCF-7 breast cancer cells treated with 1,25-dihydroxyvitamin D3 or a 17-methyl-D-ring analog.
Anticancer research 2009;29(9):3585-90.
2009: Karen Lemmens; Tijl De Bie; Thomas Dhollander; Pieter Monsieurs; Bart De Moor; Julio Collado-Vides; Kristof Engelen; Kathleen Marchal
The condition-dependent transcriptional network in Escherichia coli.
Annals of the New York Academy of Sciences 2009;1158():29-35.
2009: Karen Lemmens; Tijl De Bie; Thomas Dhollander; Sigrid C J De Keersmaecker; Inge M V Thijs; Geert Schoofs; Ami De Weerdt; Bart De Moor; Jos Vanderleyden; Julio Collado-Vides; Kristof Engelen; Kathleen Marchal
DISTILLER: a data integration framework to reveal condition dependency of complex regulons in Escherichia coli.
Genome biology 2009;10(3):R27.
2009: Hong Sun; Tijl De Bie; Valerie Storms; Qiang Fu; Thomas Dhollander; Karen Lemmens; Annemieke Verstuyf; Bart De Moor; Kathleen Marchal
ModuleDigger: an itemset mining framework for the detection of cis-regulatory modules.
BMC bioinformatics 2009;10 Suppl 1():S30.
2008: Ana C Fierro; Filip Vandenbussche; Kristof Engelen; Yves Van de Peer; Kathleen Marchal
Meta Analysis of Gene Expression Data within and Across Species.
Current genomics 2008;9(8):525-34.
2008: Bart Smets; Pepijn De Snijder; Kristof Engelen; Eva Joossens; Ruben Ghillebert; Karin Thevissen; Kathleen Marchal; Joris Winderickx
Genome-wide expression analysis reveals TORC1-dependent and -independent functions of Sch9.
FEMS yeast research 2008;8(8):1276-88.
2008: Joost C A Janssens; Hans Steenackers; Stijn Robijns; Edith Gellens; Jeremy Levin; Hui Zhao; Kim Hermans; David De Coster; Tine L A Verhoeven; Kathleen Marchal; Jos Vanderleyden; Dirk E De Vos; Sigrid C J De Keersmaecker
Brominated furanones inhibit biofilm formation by Salmonella enterica serovar Typhimurium.
Applied and environmental microbiology 2008;74(21):6639-48.
2008: Guy Eelen; Isabelle Vanden Bempt; Lieve Verlinden; Maria Drijkoningen; A Smeets; Patrick Neven; Marie-Rose Christiaens; Kathleen Marchal; Roger Bouillon; A Verstuyf
Expression of the BRCA1-interacting protein Brip1/BACH1/FANCJ is driven by E2F and correlates with human breast cancer malignancy.
Oncogene 2008;27(30):4233-41.
2008: Kathleen Marchal; Sigrid C J De Keersmaecker
Bacterial networking.
Genome biology 2008;9(11):327.
2008: Lieven Thorrez; Katrijn Van Deun; Léon-Charles Tranchevent; Leentje Van Lommel; Kristof Engelen; Kathleen Marchal; Yves Moreau; Iven Van Mechelen; Frans Schuit
Using ribosomal protein genes as reference: a tale of caution.
PloS one 2008;3(3):e1854.
2008: Koen Van Leemput; Tim Van den Bulcke; Thomas Dhollander; Bart De Moor; Kathleen Marchal; Piet van Remortel
Exploring the operational characteristics of inference algorithms for transcriptional networks by means of synthetic data.
Artificial life 2008;14(1):49-63.
2007: Thomas Dhollander; Qizheng Sheng; Karen Lemmens; Bart De Moor; Kathleen Marchal; Yves Moreau
Query-driven module discovery in microarray data.
Bioinformatics (Oxford, England) 2007;23(19):2573-80.
2007: Lieve Verlinden; Isabelle Vanden Bempt; Guy Eelen; Maria Drijkoningen; Ilse Verlinden; Kathleen Marchal; Christiane De Wolf-Peeters; Marie-Rose Christiaens; Luc Michiels; Roger Bouillon; Annemieke Verstuyf
The E2F-regulated gene Chk1 is highly expressed in triple-negative estrogen receptor /progesterone receptor /HER-2 breast carcinomas.
Cancer research 2007;67(14):6574-81.
2007: Hui Zhao; Kristof Engelen; Bart De Moor; Kathleen Marchal
CALIB: a Bioconductor package for estimating absolute expression levels from two-color microarray data.
Bioinformatics (Oxford, England) 2007;23(13):1700-1.
2007: Inge M V Thijs; Sigrid C J De Keersmaecker; Abeer A Fadda; Kristof Engelen; Hui Zhao; Michael McClelland; Kathleen Marchal; Jos Vanderleyden
Delineation of the Salmonella enterica serovar Typhimurium HilA regulon through genome-wide location and transcript analysis.
Journal of bacteriology 2007;189(13):4587-96.
2007: Lieve Verlinden; Guy Eelen; Ruth Van Hellemont; Kristof Engelen; Ine Beullens; Mark Van Camp; Kathleen Marchal; Chantal Mathieu; Roger Bouillon; Annemieke Verstuyf
1alpha,25-Dihydroxyvitamin D3-induced down-regulation of the checkpoint proteins, Chk1 and Claspin, is mediated by the pocket proteins p107 and p130.
The Journal of steroid biochemistry and molecular biology 2007;103(3-5):411-5.
2007: Sarah Lebeer; Sigrid C J De Keersmaecker; Tine L A Verhoeven; Abeer A Fadda; Kathleen Marchal; Jos Vanderleyden
Functional analysis of luxS in the probiotic strain Lactobacillus rhamnosus GG reveals a central metabolic role important for growth and biofilm formation.
Journal of bacteriology 2007;189(3):860-71.
2007: Inge M V Thijs; Sigrid C J De Keersmaecker; Abeer A Fadda; Kristof Engelen; H Zhao; Michael McClelland; Kathleen Marchal; I Vanderleyden
Combining omics data to unravel the regulatory network controlling Salmonella invasion of epithelial cells.
Communications in agricultural and applied biological sciences 2007;72(1):55-9.
2007: Katrijn Van Deun; Kathleen Marchal; Willem J Heiser; Kristof Engelen; Iven Van Mechelen
Joint mapping of genes and conditions via multidimensional unfolding analysis.
BMC bioinformatics 2007;8():181.
2007: Tom Michoel; Steven Maere; Eric Bonnet; Anagha Joshi; Yvan Saeys; Tim Van den Bulcke; Koenraad Van Leemput; Piet van Remortel; Martin Kuiper; Kathleen Marchal; Yves Van de Peer
Validating module network learning algorithms using simulated data.
BMC bioinformatics 2007;8 Suppl 2():S5.
2006: Sigrid C J De Keersmaecker; Inge M V Thijs; Jos Vanderleyden; Kathleen Marchal
Integration of omics data: how well does it work for bacteria?
Molecular microbiology 2006;62(5):1239-50.
2006: Sigrid C J De Keersmaecker; Tine L A Verhoeven; Jos Desair; Kathleen Marchal; Jos Vanderleyden; István Nagy
Strong antimicrobial activity of Lactobacillus rhamnosus GG against Salmonella typhimurium is due to accumulation of lactic acid.
FEMS microbiology letters 2006;259(1):89-96.
2006: Kristof Engelen; Bart Naudts; Bart De Moor; Kathleen Marchal
A calibration method for estimating absolute expression levels from microarray data.
Bioinformatics (Oxford, England) 2006;22(10):1251-8.
2006: Evi Denolet; Karel De Gendt; Joke Allemeersch; Kristof Engelen; Kathleen Marchal; Paul van Hummelen; Karen A L Tan; Richard M Sharpe; Philippa Saunders; Johannes V Swinnen; Guido Verhoeven
The effect of a sertoli cell-selective knockout of the androgen receptor on testicular gene expression in prepubertal mice.
Molecular endocrinology (Baltimore, Md.) 2006;20(2):321-34.
2006: Karen Lemmens; Thomas Dhollander; Tijl De Bie; Pieter Monsieurs; Kristof Engelen; Bart Smets; Joris Winderickx; Bart De Moor; Kathleen Marchal
Inferring transcriptional modules from ChIP-chip, motif and microarray data.
Genome biology 2006;7(5):R37.
2006: Pieter Monsieurs; Gert Thijs; Abeer A Fadda; Sigrid C J De Keersmaecker; Jos Vanderleyden; Bart De Moor; Kathleen Marchal
More robust detection of motifs in coexpressed genes by using phylogenetic information.
BMC bioinformatics 2006;7():160.
2006: Frank De Smet; Nathalie Pochet; Kristof Engelen; Toon Van Gorp; Paul van Hummelen; Kathleen Marchal; Frederic Amant; Dirk Timmerman; Bart De Moor; Ignace Vergote
Predicting the clinical behavior of ovarian cancer from gene expression profiles.
International journal of gynecological cancer : official journal of the International Gynecological Cancer Society 2006;16 Suppl 1():147-51.
2006: Tim Van den Bulcke; Koenraad Van Leemput; Bart Naudts; Piet van Remortel; Hongwu Ma; Alain Verschoren; Bart De Moor; Kathleen Marchal
SynTReN: a generator of synthetic gene expression data for design and analysis of structure learning algorithms.
BMC bioinformatics 2006;7():43.
2005: Lieve Verlinden; Guy Eelen; Ine Beullens; Mark Van Camp; Paul van Hummelen; Kristof Engelen; Ruth Van Hellemont; Kathleen Marchal; Bart De Moor; Floris Foijer; Hein te Riele; Monique Beullens; Mathieu Bollen; Chantal Mathieu; Roger Bouillon; Annemieke Verstuyf
Characterization of the condensin component Cnap1 and protein kinase Melk as novel E2F target genes down-regulated by 1,25-dihydroxyvitamin D3.
The Journal of biological chemistry 2005;280(45):37319-30.
2005: Nathalie Pochet; Frizo A L Janssens; Frank De Smet; Kathleen Marchal; J A K Suykens; Bart De Moor
M@CBETH: a microarray classification benchmarking tool.
Bioinformatics (Oxford, England) 2005;21(14):3185-6.
2005: Sigrid C J De Keersmaecker; Kathleen Marchal; Tine L A Verhoeven; Kristof Engelen; Jos Vanderleyden; Corrella Detweiler
Microarray analysis and motif detection reveal new targets of the Salmonella enterica serovar Typhimurium HilA regulatory protein, including hilA itself.
Journal of bacteriology 2005;187(13):4381-91.
2005: Sigrid C J De Keersmaecker; Csaba Varszegi; Nadja van Boxel; Lothar W Habel; Kristine Metzger; Ruth Daniels; Kathleen Marchal; Dirk E De Vos; Jos Vanderleyden
Chemical synthesis of (S)-4,5-dihydroxy-2,3-pentanedione, a bacterial signal molecule precursor, and validation of its activity in Salmonella typhimurium.
The Journal of biological chemistry 2005;280(20):19563-8.
2005: Pieter Monsieurs; Sigrid C J De Keersmaecker; William Wiley Navarre; Martin W Bader; Frank De Smet; Michael McClelland; Ferric C Fang; Bart De Moor; Jos Vanderleyden; Kathleen Marchal
Comparison of the PhoPQ regulon in Escherichia coli and Salmonella typhimurium.
Journal of molecular evolution 2005;60(4):462-74.
2005: Johnny Roosen; Kristof Engelen; Kathleen Marchal; Janick Mathys; Gerard Griffioen; Elisabetta Cameroni; Johan M Thevelein; Claudio de Virgilio; Bart De Moor; Joris Winderickx
PKA and Sch9 control a molecular switch important for the proper adaptation to nutrient availability.
Molecular microbiology 2005;55(3):862-80.
2005: Ruth Van Hellemont; Pieter Monsieurs; Gert Thijs; Bart De Moor; Yves Van de Peer; Kathleen Marchal
A novel approach to identifying regulatory motifs in distantly related genomes.
Genome biology 2005;6(13):R113.
2005: Tijl De Bie; Pieter Monsieurs; Kristof Engelen; Bart De Moor; Nello Cristianini; Kathleen Marchal
Discovering transcriptional modules from motif, chip-chip and microarray data.
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing 2005;():483-94.
2004: Gunter Dirix; Pieter Monsieurs; Bruno Dombrecht; Ruth Daniels; Kathleen Marchal; Jos Vanderleyden; Jan Michiels
Peptide signal molecules and bacteriocins in Gram-negative bacteria: a genome-wide in silico screening for peptides containing a double-glycine leader sequence and their cognate transporters.
Peptides 2004;25(9):1425-40.
2004: Jan R Brants; Torik A Y Ayoubi; Kiran Chada; Kathleen Marchal; Wim J M Van De Ven; Marleen MR Petit
Differential regulation of the insulin-like growth factor II mRNA-binding protein genes by architectural transcription factor HMGA2.
FEBS letters 2004;569(1-3):277-83.
2004: Els Vanbleu; Kathleen Marchal; Jos Vanderleyden
Genetic and physical map of the pLAFR1 vector.
DNA sequence : the journal of DNA sequencing and mapping 2004;15(3):225-7.
2004: Gunter Dirix; Pieter Monsieurs; Kathleen Marchal; Jos Vanderleyden; Jan Michiels
Screening genomes of Gram-positive bacteria for double-glycine-motif-containing peptides.
Microbiology (Reading, England) 2004;150(Pt 5):1121-6.
2004: Els Vanbleu; Kathleen Marchal; Mark Lambrecht; Janick Mathys; Jos Vanderleyden
Annotation of the pRhico plasmid of Azospirillum brasilense reveals its role in determining the outer surface composition.
FEMS microbiology letters 2004;232(2):165-72.
2004: Kathleen Marchal; Sigrid C J De Keersmaecker; Pieter Monsieurs; Nadja van Boxel; Karen Lemmens; Gert Thijs; Jos Vanderleyden; Bart De Moor
In silico identification and experimental validation of PmrAB targets in Salmonella typhimurium by regulatory motif detection.
Genome biology 2004;5(2):R9.
2004: Guy Eelen; Lieve Verlinden; Mark Van Camp; Paul van Hummelen; Kathleen Marchal; Bart De Moor; Chantal Mathieu; Geert Carmeliet; Roger Bouillon; Annemieke Verstuyf
The effects of 1alpha,25-dihydroxyvitamin D3 on the expression of DNA replication genes.
Journal of bone and mineral research : the official journal of the American Society for Bone and Mineral Research 2004;19(1):133-46.
2003: Stephane Marcel Rombauts; Kobe Florquin; Magali Lescot; Kathleen Marchal; Pierre Rouzé; Yves Van de Peer
Computational approaches to identify promoters and cis-regulatory elements in plant genomes.
Plant physiology 2003;132(3):1162-76.
2003: Bert Coessens; Gert Thijs; Stein Aerts; Kathleen Marchal; Frank De Smet; Kristof Engelen; Patrick Glenisson; Yves Moreau; Janick Mathys; Bart De Moor
INCLUSive: A web portal and service registry for microarray and regulatory sequence analysis.
Nucleic acids research 2003;31(13):3468-70.
2003: Kristof Engelen; Bert Coessens; Kathleen Marchal; Bart De Moor
MARAN: normalizing micro-array data.
Bioinformatics (Oxford, England) 2003;19(7):893-4.
2003: Kathleen Marchal; Gert Thijs; Sigrid C J De Keersmaecker; Pieter Monsieurs; Bart De Moor; Jos Vanderleyden
Genome-specific higher-order background models to improve motif detection.
Trends in microbiology 2003;11(2):61-6.
2002: Ilse Smets; Kristel Bernaerts; Jun Sun; Kathleen Marchal; Jos Vanderleyden; Jan F Van Impe
Sensitivity function-based model reduction: A bacterial gene expression case study.
Biotechnology and bioengineering 2002;80(2):195-200.
2002: Frank De Smet; Janick Mathys; Kathleen Marchal; Gert Thijs; Bart De Moor; Yves Moreau
Adaptive quality-based clustering of gene expression profiles.
Bioinformatics (Oxford, England) 2002;18(5):735-46.
2002: Gert Thijs; Yves Moreau; Frank De Smet; Janick Mathys; Magali Lescot; Stephane Marcel Rombauts; Pierre Rouze; Bart De Moor; Kathleen Marchal
INCLUSive: integrated clustering, upstream sequence retrieval and motif sampling.
Bioinformatics (Oxford, England) 2002;18(2):331-2.
2002: Bruno Dombrecht; Kathleen Marchal; Jos Vanderleyden; Jan Michiels
Prediction and overview of the RpoN-regulon in closely related species of the Rhizobiales.
Genome biology 2002;3(12):RESEARCH0076.
2002: Gert Thijs; Kathleen Marchal; Magali Lescot; Stephane Marcel Rombauts; Bart De Moor; Pierre Rouzé; Yves Moreau
A Gibbs sampling method to detect overrepresented motifs in the upstream regions of coexpressed genes.
Journal of computational biology : a journal of computational molecular cell biology 2002;9(2):447-64.
2002: Magali Lescot; Patrice Déhais; Gert Thijs; Kathleen Marchal; Yves Moreau; Yves Van de Peer; Pierre Rouzé; Stephane Marcel Rombauts
PlantCARE, a database of plant cis-acting regulatory elements and a portal to tools for in silico analysis of promoter sequences.
Nucleic acids research 2002;30(1):325-7.
2001: Gert Thijs; Magali Lescot; Kathleen Marchal; Stephane Marcel Rombauts; Bart De Moor; Pierre Rouzé; Yves Moreau
A higher-order background model improves the detection of promoter regulatory elements by Gibbs sampling.
Bioinformatics (Oxford, England) 2001;17(12):1113-22.
2001: J Sun; Ilse Smets; Kristel Bernaerts; Jan F Van Impe; Jos Vanderleyden; Kathleen Marchal
Quantitative analysis of bacterial gene expression by using the gusA reporter gene system.
Applied and environmental microbiology 2001;67(8):3350-7.