References of "Rigali, Sébastien"
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See detailOn the necessity and biological significance of threshold-free regulon prediction outputs
Rigali, Sébastien ULg; Nivelle, Renaud; Tocquin, Pierre ULg

in Molecular Biosystems (2015)

The in silico prediction of cis-acting elements in a genome is an efficient way to quickly obtain an overview of the biological processes controlled by a trans-acting factor, and connections between ... [more ▼]

The in silico prediction of cis-acting elements in a genome is an efficient way to quickly obtain an overview of the biological processes controlled by a trans-acting factor, and connections between regulatory networks. Several regulon prediction web tools are available, designed to identify DNA motifs predicted to be bound by transcription factors using position weight matrix-based algorithms. In this paper we expose and discuss the conflicting objectives of software creators (bioinformaticians) and software users (biologists), who aim for reliable and exhaustive prediction outputs, respectively. Software makers, concerned with providing tools that minimise the number of false positive hits, often impose a stringent threshold score for a sequence to be included in the list of the putative cis-acting sites. This rigidity eventually results in the identification of strongly reliable but largely straightforward sites, i.e. those associated with genes already anticipated to be targeted by the studied transcription factor. Importantly, this biased identification of strongly bound sequences contrasts with the biological reality where, in many circumstances, a weak DNA-protein interaction is required for the appropriate gene's expression. We show here a series of transcriptionally controlled systems involving weakly bound cis-acting elements that could never have been discovered because of the policy of preventing software users from modifying the screening parameters. Proposing only trustworthy prediction outputs thus prevents biologists from fully utilising their knowledge background and deciding to analyse statistically irrelevant hits that could nonetheless be potentially involved in subtle, unexpected, though essential cis-trans relationships. [less ▲]

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See detailDetonator and Bomb of Streptomyces coelicolor development
Rigali, Sébastien ULg

Scientific conference (2014, November 28)

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See detailPrediction of Regulatory Networks & Control of Secondary Metabolite Biosynthesis
Rigali, Sébastien ULg

Conference (2014, October 10)

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See detailOne click… and a novel Antibiotic !
Rigali, Sébastien ULg

Scientific conference (2014, September 26)

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See detailProdiginines: cell-death associated metabolites in Nature and Medicine
Rigali, Sébastien ULg

Conference (2014, September 09)

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See detailAltered Desferrioxamine-mediated Iron Utilization is a Common Trait of bald Mutants of Streptomyces coelicolor
Lambert, Stéphany ULg; Traxler, Matthew F; Craig, Matthias et al

in Metallomics (2014)

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See detailControl of chitin and N-acetylglucosamine utilization in Saccharopolyspora erythraea.
Liao, Chengheng; Rigali, Sébastien ULg; Licona-Cassani, C et al

in Microbiology (2014)

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See detailAltered Desferrioxamine-mediated Iron Utilization is a Common Trait of bald Mutants of Streptomyces coelicolor
Lambert, Stéphanie ULg; Traxler, M. F.; Craig, M. et al

in Metallomics (2014)

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See detailGlnR-mediated regulation of nitrogen metabolism in the actinomycete Saccharopolysporaerythraea
Li-Li, Yao; Cheng-Heng, Liao; Gang, Huang et al

in Applied Microbiology and Biotechnology (2014)

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See detailStreptomyces in Nature and Medicine
Rigali, Sébastien ULg

Scientific conference (2013, November 22)

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See detailStory of a superman and a superbug
Rigali, Sébastien ULg

Scientific conference (2013, May)

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See detailStory of a superman and a superbug
Rigali, Sébastien ULg

Scientific conference (2013, April)

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See detailStreptomyces : a Superbug
Rigali, Sébastien ULg

Conference given outside the academic context (2013)

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See detailUse of red autofluorescence for monitoring prodiginine biosynthesis
Tenconi, Elodie ULg; Guichard, Paul; Motte, Patrick ULg et al

in Journal of Microbiological Methods (2013), 93

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See detailAntibiotic resistance: lessons from the soil
Rigali, Sébastien ULg

Scientific conference (2012)

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See detailUnsuspected Control of Siderophore production by N-acetylglucosamine in Streptomycetes
Craig, Matthias ULg; Lambert, Stéphany ULg; Jourdan, Samuel ULg et al

in Environmental Microbiology Reports (2012)

Detailed reference viewed: 52 (25 ULg)