Ghent University Academic Bibliography

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Discovering candidates for gene network expansion by distributed volunteer computing

Francesco Asnicar, Luca Erculiani, Francesca Galante, Caterina Gallo, Luca Masera, Paolo Morettin, Nadir Sella, Stanislau Semeniuta, Thomas Tolio, Giulia Malacarne, et al.

(2015) 2015 IEEE Trustcom/BigDataSE/ISPA, vol. 3. p.248-253
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Phenotypical and molecular responses of Arabidopsis thaliana roots as a result of inoculation with the auxin-producing bacterium Azospirillum brasilense

Stijn Spaepen, Stijn Bossuyt, Kristof Engelen, Kathleen Marchal (UGent) and Jos Vanderleyden

(2014) NEW PHYTOLOGIST. 201(3). p.850-861
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MAGIC: access portal to a cross-platform gene expression compendium for maize

Qiang Fu, Ana Carolina Elisa Fierro Gutierrez (UGent) , Pieter Meysman, Aminael Sanchez Rodriguez (UGent) , Klaas Vandepoele (UGent) , Kathleen Marchal (UGent) and Kristof Engelen

(2014) BIOINFORMATICS. 30(9). p.1316-1318
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- Journal Article
- A1
- open access
COLOMBOS v2.0 : an ever expanding collection of bacterial expression compendia

Pieter Meysman, Paolo Sonego, Luca Bianco, Qiang Fu, Daniela Ledezma-Tejeida, Socorro Gama-Castro, Veerle Liebens, Jan Michiels, Kris Laukens, Kathleen Marchal (UGent) , et al.

(2014) NUCLEIC ACIDS RESEARCH. 42(D1). p.D649-D653
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Identifying differentially expressed genes in the absence of replication

Pushpke J Thilakarathne, Geert Verbeke, Kristof Engelen, Kathleen Marchal (UGent) and Dan Lin

(2013) INTERNATIONAL JOURNAL OF BIOINFORMATICS RESEARCH AND APPLICATIONS. 9(1). p.71-90
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Identifying common structural DNA properties in transcription factor binding site sets of the LacI-GalR family

Pieter Meysman, Kathleen Marchal (UGent) and Kristof Engelen

(2013) CURRENT BIOINFORMATICS. 8(4). p.483-488
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Expression divergence between Escherichia coli and Salmonella enterica serovar Typhimurium reflects their lifestyles

Pieter Meysman, Aminael Sánchez-Rodríguez, Qiang Fu, Kathleen Marchal (UGent) and Kristof Engelen

(2013) MOLECULAR BIOLOGY AND EVOLUTION. 30(6). p.1302-1314
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- Journal Article
- A2
- open access
DNA structural properties in the classification of genomic transcription

Pieter Meysman, Kathleen Marchal (UGent) and Kristof Engelen

(2012) BIOINFORMATICS AND BIOLOGY INSIGHTS. 6. p.155-168
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- Book Chapter
Directed module detection in a large-scale expression compendium

Qiang Fu, Karen Lemmens, Aminael Sánchez-Rodríguez, Inge M Thijs, Pieter Meysman, Hong Sun, Ana Carolina Fierro, Kristof Engelen and Kathleen Marchal (UGent)

(2012) Bacterial molecular networks : methods and protocols. In Methods in Molecular Biology 804. p.131-165
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- Journal Article
- A1
- open access
COMODO : an adaptive coclustering strategy to identify conserved coexpression modules between organisms

Peyman Zarrineh, Ana C Fierro, Aminael Sánchez-Rodríguez, Bart De Moor, Kristof Engelen and Kathleen Marchal (UGent)

(2011) NUCLEIC ACIDS RESEARCH. 39(7).
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A comparative transcriptome analysis of Rhizobium etli bacteroids: specific gene expression during symbiotic nongrowth

Maarten Vercruysse, Maarten Fauvart, Serge Beullens, Kristien Braeken, Lore Cloots, Kristof Engelen, Kathleen Marchal (UGent) and Jan Michiels

(2011) MOLECULAR PLANT-MICROBE INTERACTIONS. 24(12). p.1553-1561
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- Journal Article
- A1
- open access
COLOMBOS : access port for cross-platform bacterial expression compendia

Kristof Engelen, Qiang Fu, Pieter Meysman, Aminael Sánchez-Rodríguez, Riet De Smet (UGent) , Karen Lemmens, Ana Carolina Fierro and Kathleen Marchal (UGent)

(2011) PLOS ONE. 6(7).
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Transcriptome analysis of the rhizosphere bacterium Azospirillum brasilense reveals an extensive auxin response

Sandra Van Puyvelde, Lore Cloots, Kristof Engelen, Frederik Das, Kathleen Marchal (UGent) , Jos Vanderleyden and Stijn Spaepen

(2011) MICROBIAL ECOLOGY. 61(4). p.723-728
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- Journal Article
- A1
- open access
Query-based biclustering of gene expression data using Probabilistic Relational Models

Hui Zhao, Lore Cloots, Tim Van den Bulcke, Yan Wu, Riet De Smet (UGent) , Valerie Storms, Pieter Meysman, Kristof Engelen and Kathleen Marchal (UGent)

(2011) BMC BIOINFORMATICS. 12(suppl. 1).
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- Journal Article
- A1
- open access
Use of structural DNA properties for the prediction of transcription-factor binding sites in Escherichia coli

Pieter Meysman, Hai Dang Thanh, Kris Laukens, Riet De Smet (UGent) , Yan Wu, Kathleen Marchal (UGent) and Kristof Engelen

(2011) NUCLEIC ACIDS RESEARCH. 39(2).

Academic Bibliography

Discovering candidates for gene network expansion by distributed volunteer computing

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

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

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

Identifying differentially expressed genes in the absence of replication

Identifying common structural DNA properties in transcription factor binding site sets of the LacI-GalR family

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

DNA structural properties in the classification of genomic transcription

Directed module detection in a large-scale expression compendium

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

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

COLOMBOS : access port for cross-platform bacterial expression compendia

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

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

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

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