Search Results - "Bourdon, Jérémie"

A multi-objective constraint-based approach for modeling genome-scale microbial ecosystems by Budinich, Marko, Bourdon, Jérémie, Larhlimi, Abdelhalim, Eveillard, Damien

“…Interplay within microbial communities impacts ecosystems on several scales, and elucidation of the consequent effects is a difficult task in ecology. In…”
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Predicting weighted unobserved nodes in a regulatory network using answer set programming by Le Bars, Sophie, Bolteau, Mathieu, Bourdon, Jérémie, Guziolowski, Carito

“…The impact of a perturbation, over-expression, or repression of a key node on an organism, can be modelled based on a regulatory and/or metabolic network…”
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Induction of Human Trophoblast Stem Cells from Somatic Cells and Pluripotent Stem Cells by Castel, Gaël, Meistermann, Dimitri, Bretin, Betty, Firmin, Julie, Blin, Justine, Loubersac, Sophie, Bruneau, Alexandre, Chevolleau, Simon, Kilens, Stéphanie, Chariau, Caroline, Gaignerie, Anne, Francheteau, Quentin, Kagawa, Harunobu, Charpentier, Eric, Flippe, Léa, François--Campion, Valentin, Haider, Sandra, Dietrich, Bianca, Knöfler, Martin, Arima, Takahiro, Bourdon, Jérémie, Rivron, Nicolas, Masson, Damien, Fournier, Thierry, Okae, Hiroaki, Fréour, Thomas, David, Laurent

“…Human trophoblast stem cells (hTSCs) derived from blastocysts and first-trimester cytotrophoblasts offer an unprecedented opportunity to study the placenta…”
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Tuning Co-operative Energy Transfer in Copper(I) Complexes Using Two-Photon Absorbing Diimine-Based Ligand Sensitizers by Collins, Shawn, Beaucage, Noémie, Singh, Zujhar, Bourdon, Jérémie

“…Photocatalysis mediated by low energy light wavelengths has potential to enable safer, sustainable synthetic methods. A phenanthroline-derived ligand…”
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Integrated pseudotime analysis of human pre-implantation embryo single-cell transcriptomes reveals the dynamics of lineage specification by Meistermann, Dimitri, Bruneau, Alexandre, Loubersac, Sophie, Reignier, Arnaud, Firmin, Julie, François-Campion, Valentin, Kilens, Stéphanie, Lelièvre, Yohann, Lammers, Jenna, Feyeux, Magalie, Hulin, Phillipe, Nedellec, Steven, Bretin, Betty, Castel, Gaël, Allègre, Nicolas, Covin, Simon, Bihouée, Audrey, Soumillon, Magali, Mikkelsen, Tarjei, Barrière, Paul, Chazaud, Claire, Chappell, Joel, Pasque, Vincent, Bourdon, Jérémie, Fréour, Thomas, David, Laurent

“…Understanding lineage specification during human pre-implantation development is a gateway to improving assisted reproductive technologies and stem cell…”
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Boolean Network Models of Human Preimplantation Development by Bolteau, Mathieu, Chebouba, Lokmane, David, Laurent, Bourdon, Jérémie, Guziolowski, Carito

“…Single-cell transcriptomic studies of differentiating systems allow meaningful understanding, especially in human embryonic development and cell fate…”
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Meneco, a Topology-Based Gap-Filling Tool Applicable to Degraded Genome-Wide Metabolic Networks by Prigent, Sylvain, Frioux, Clémence, Dittami, Simon M, Thiele, Sven, Larhlimi, Abdelhalim, Collet, Guillaume, Gutknecht, Fabien, Got, Jeanne, Eveillard, Damien, Bourdon, Jérémie, Plewniak, Frédéric, Tonon, Thierry, Siegel, Anne

“…Increasing amounts of sequence data are becoming available for a wide range of non-model organisms. Investigating and modelling the metabolic behaviour of…”
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Computational Methods in Systems Biology by Bourdon, Jérémie, Roux, Olivier

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A Logic for Checking the Probabilistic Steady-State Properties of Reaction Networks by Picard, Vincent, Siegel, Anne, Bourdon, Jérémie

“…Designing probabilistic reaction models and determining their stochastic kinetic parameters are major issues in systems biology. To assist in the construction…”
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Computational discovery of dynamic cell line specific Boolean networks from multiplex time-course data by Razzaq, Misbah, Paulevé, Loïc, Siegel, Anne, Saez-Rodriguez, Julio, Bourdon, Jérémie, Guziolowski, Carito

“…Protein signaling networks are static views of dynamic processes where proteins go through many biochemical modifications such as ubiquitination and…”
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Probabilistic Modeling of Microbial Metabolic Networks for Integrating Partial Quantitative Knowledge Within the Nitrogen Cycle by Eveillard, Damien, Bouskill, Nicholas J, Vintache, Damien, Gras, Julien, Ward, Bess B, Bourdon, Jérémie

“…Understanding the interactions between microbial communities and their environment sufficiently to predict diversity on the basis of physicochemical parameters…”
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Bayesian Integrative Modeling of Genome-Scale Metabolic and Regulatory Networks by Mhamdi, Hanen, Bourdon, Jérémie, Larhlimi, Abdelhalim, Elloumi, Mourad

“…The integration of high-throughput data to build predictive computational models of cellular metabolism is a major challenge of systems biology. These models…”
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Combinations of Cytochrome P450 Gene Polymorphisms Enhancing the Risk for Sporadic Colorectal Cancer Related to Red Meat Consumption by KÜRY, Sébastien, BUECHER, Bruno, OLLIVRY, Jean, LAFRAISE, Bernard, CHUPIN, Louis-Dominique, BEZIEAU, Stéphane, ROBIOU-DU-PONT, Sébastien, SCOUL, Catherine, SEBILLE, Véronique, COLMAN, Hélène, LE HOUEROU, Claire, LE NEEL, Tanguy, BOURDON, Jérémie, FAROUX, Roger

“…Susceptibility to sporadic colorectal cancers (CRC) is generally thought to be the sum of complex interactions between environmental and genetic factors, all…”
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Integrating quantitative knowledge into a qualitative gene regulatory network by Bourdon, Jérémie, Eveillard, Damien, Siegel, Anne

“…Despite recent improvements in molecular techniques, biological knowledge remains incomplete. Any theorizing about living systems is therefore necessarily…”
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Model of the delayed translation of cyclin B maternal mRNA after sea urchin fertilization by Picard, Vincent, Mulner-Lorillon, Odile, Bourdon, Jérémie, Morales, Julia, Cormier, Patrick, Siegel, Anne, Bellé, Robert

“…SUMMARY Sea urchin eggs exhibit a cap‐dependent increase in protein synthesis within minutes after fertilization. This rise in protein synthesis occurs at a…”
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Exploring the impact of dexamethasone on gene regulation in myeloma cells by Bessonneau-Gaborit, Victor, Cruard, Jonathan, Guerin-Charbonnel, Catherine, Derrien, Jennifer, Alberge, Jean-Baptiste, Douillard, Elise, Devic, Magali, Deshayes, Sophie, Campion, Loïc, Westermann, Frank, Moreau, Phillipe, Herrmann, Carl, Bourdon, Jérémie, Magrangeas, Florence, Minvielle, Stéphane

“…Among glucocorticoids (GCs), dexamethasone (Dex) is widely used in treatment of multiple myelomas. However, despite a definite benefit, all patients relapse…”
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Statistical properties of factor oracles by Bourdon, Jérémie, Rusu, Irena

“…Factor and suffix oracles have been introduced in Allauzen et al. (1999) [1] in order to provide an economic and efficient solution for storing all the factors…”
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Exploring metabolism flexibility in complex organisms through quantitative study of precursor sets for system outputs by Abdou-Arbi, Oumarou, Lemosquet, Sophie, Van Milgen, Jaap, Siegel, Anne, Bourdon, Jérémie

“…When studying metabolism at the organ level, a major challenge is to understand the matter exchanges between the input and output components of the system. For…”
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Temporal constraints of a gene regulatory network: Refining a qualitative simulation by Ahmad, Jamil, Bourdon, Jérémie, Eveillard, Damien, Fromentin, Jonathan, Roux, Olivier, Sinoquet, Christine

“…The modelling of gene regulatory networks (GRNs) has classically been addressed through very different approaches. Among others, extensions of Thomas’s…”
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Toward systems biology in brown algae to explore acclimation and adaptation to the shore environment by Tonon, Thierry, Eveillard, Damien, Prigent, Sylvain, Bourdon, Jérémie, Potin, Philippe, Boyen, Catherine, Siegel, Anne

“…Brown algae belong to a phylogenetic lineage distantly related to land plants and animals. They are almost exclusively found in the intertidal zone, a harsh…”
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