Kathleen Marchal

According to our database1, Kathleen Marchal authored at least 49 papers between 2001 and 2018.

Collaborative distances :
  • Dijkstra number2 of five.
  • Erdős number3 of four.

Timeline

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PhD thesis 
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Bibliography

2018
Modeling multi-valued biological interaction networks using fuzzy answer set programming.
Fuzzy Sets and Systems, 2018

2016
EXPLoRA-web: linkage analysis of quantitative trait loci using bulk segregant analysis.
Nucleic Acids Research, 2016

Simultaneous discovery of cancer subtypes and subtype features by molecular data integration.
Bioinformatics, 2016

2015
PheNetic: network-based interpretation of molecular profiling data.
Nucleic Acids Research, 2015

SomInaClust: detection of cancer genes based on somatic mutation patterns of inactivation and clustering.
BMC Bioinformatics, 2015

2014
COLOMBOS v2.0: an ever expanding collection of bacterial expression compendia.
Nucleic Acids Research, 2014

ASP-G: an ASP-based method for finding attractors in genetic regulatory networks.
Bioinformatics, 2014

MAGIC: access portal to a cross-platform gene expression compendium for maize.
Bioinformatics, 2014

Ranked Tiling.
Proceedings of the Machine Learning and Knowledge Discovery in Databases, 2014

2013
Synthetic Biology and Microdevices: A Powerful Combination.
JETC, 2013

Identifying differentially expressed genes in the absence of replication.
IJBRA, 2013

EPSILON: an eQTL prioritization framework using similarity measures derived from local networks.
Bioinformatics, 2013

An alignment-free approach for eukaryotic ITS2 annotation and phylogenetic inference.
Proceedings of the International Work-Conference on Bioinformatics and Biomedical Engineering, 2013

Using novel bio-inspired principles to improve adaptability of evolutionary robots in dynamically changing environments.
Proceedings of the Twelfth European Conference on the Synthesis and Simulation of Living Systems: Advances in Artificial Life, 2013

2012
MotifSuite: workflow for probabilistic motif detection and assessment.
Bioinformatics, 2012

Mining Local Staircase Patterns in Noisy Data.
Proceedings of the 12th IEEE International Conference on Data Mining Workshops, 2012

2011
Use of structural DNA properties for the prediction of transcription-factor binding sites in Escherichia coli.
Nucleic Acids Research, 2011

A community effort towards a knowledge-base and mathematical model of the human pathogen Salmonella Typhimurium LT2.
BMC Systems Biology, 2011

Query-based biclustering of gene expression data using Probabilistic Relational Models.
BMC Bioinformatics, 2011

An ensemble biclustering approach for querying gene expression compendia with experimental lists.
Bioinformatics, 2011

2010
An ensemble method for querying gene expression compendia with experimental lists.
Proceedings of the 2010 IEEE International Conference on Bioinformatics and Biomedicine, 2010

Cis-regulatory module detection using constraint programming.
Proceedings of the 2010 IEEE International Conference on Bioinformatics and Biomedicine, 2010

2009
Comparative analysis of module-based versus direct methods for reverse-engineering transcriptional regulatory networks.
BMC Systems Biology, 2009

ModuleDigger: an itemset mining framework for the detection of cis-regulatory modules.
BMC Bioinformatics, 2009

ViTraM: visualization of transcriptional modules.
Bioinformatics, 2009

Module networks revisited: computational assessment and prioritization of model predictions.
Bioinformatics, 2009

Layout and Post-Processing of Transcriptional Modules.
Proceedings of the International Joint Conferences on Bioinformatics, 2009

The Use of Mixed Models to Identify Differentially Expressed Genes when a Single Replicate per Biological Condition is Present.
Proceedings of the International Conference on Bioinformatics & Computational Biology, 2009

2008
Evaluation of time profile reconstruction from complex two-color microarray designs.
BMC Bioinformatics, 2008

Exploring the Operational Characteristics of Inference Algorithms for Transcriptional Networks by Means of Synthetic Data.
Artificial Life, 2008

2007
Validating module network learning algorithms using simulated data.
BMC Bioinformatics, 2007

Joint mapping of genes and conditions via multidimensional unfolding analysis.
BMC Bioinformatics, 2007

CALIB: a Bioconductor package for estimating absolute expression levels from two-color microarray data.
Bioinformatics, 2007

Query-driven module discovery in microarray data.
Bioinformatics, 2007

2006
More robust detection of motifs in coexpressed genes by using phylogenetic information.
BMC Bioinformatics, 2006

SynTReN: a generator of synthetic gene expression data for design and analysis of structure learning algorithms.
BMC Bioinformatics, 2006

A calibration method for estimating absolute expression levels from microarray data.
Bioinformatics, 2006

2005
M@CBETH: a microarray classification benchmarking tool.
Bioinformatics, 2005

Discovering Transcriptional Modules from Motif, Chip-Chip and Microarray Data.
Proceedings of the Biocomputing 2005, 2005

M@CBETH: Optimizing Clinical Microarray Classification.
Proceedings of the Fourth International IEEE Computer Society Computational Systems Bioinformatics Conference Workshops & Poster Abstracts, 2005

2003
INCLUSive: a web portal and service registry for microarray and regulatory sequence analysis.
Nucleic Acids Research, 2003

Bioinformatics: Organisms from Venus, Technology from Jupiter, Algorithms from Mars.
Eur. J. Control, 2003

MARAN: Normalizing Micro-array Data.
Bioinformatics, 2003

2002
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

A Gibbs Sampling Method to Detect Overrepresented Motifs in the Upstream Regions of Coexpressed Genes.
Journal of Computational Biology, 2002

INCLUSive: INtegrated Clustering, Upstream sequence retrieval and motif Sampling.
Bioinformatics, 2002

Adaptive quality-based clustering of gene expression profiles.
Bioinformatics, 2002

2001
A higher-order background model improves the detection of promoter regulatory elements by Gibbs sampling.
Bioinformatics, 2001

A Gibbs sampling method to detect over-represented motifs in the upstream regions of co-expressed genes.
Proceedings of the Fifth Annual International Conference on Computational Biology, 2001


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