RetroPath2.0: A retrosynthesis workflow for metabolic engineers
Delépine, Baudoin, Duigou, Thomas, Carbonell, Pablo, Faulon, Jean-Loup
Published in Metabolic engineering (01.01.2018)
Published in Metabolic engineering (01.01.2018)
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Journal Article
Plug-and-play metabolic transducers expand the chemical detection space of cell-free biosensors
Voyvodic, Peter L, Pandi, Amir, Koch, Mathilde, Conejero, Ismael, Valjent, Emmanuel, Courtet, Philippe, Renard, Eric, Faulon, Jean-Loup, Bonnet, Jerome
Published in Nature communications (12.04.2019)
Published in Nature communications (12.04.2019)
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Journal Article
A neural-mechanistic hybrid approach improving the predictive power of genome-scale metabolic models
Faure, Léon, Mollet, Bastien, Liebermeister, Wolfram, Faulon, Jean-Loup
Published in Nature communications (03.08.2023)
Published in Nature communications (03.08.2023)
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Journal Article
RetroRules: a database of reaction rules for engineering biology
Duigou, Thomas, du Lac, Melchior, Carbonell, Pablo, Faulon, Jean-Loup
Published in Nucleic acids research (08.01.2019)
Published in Nucleic acids research (08.01.2019)
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Journal Article
Metabolic perceptrons for neural computing in biological systems
Pandi, Amir, Koch, Mathilde, Voyvodic, Peter L, Soudier, Paul, Bonnet, Jerome, Kushwaha, Manish, Faulon, Jean-Loup
Published in Nature communications (28.08.2019)
Published in Nature communications (28.08.2019)
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Journal Article
A versatile active learning workflow for optimization of genetic and metabolic networks
Pandi, Amir, Diehl, Christoph, Yazdizadeh Kharrazi, Ali, Scholz, Scott A, Bobkova, Elizaveta, Faure, Léon, Nattermann, Maren, Adam, David, Chapin, Nils, oughijabbari, Yeganeh, Moritz, Charles, Paczia, Nicole, Cortina, Niña Socorro, Faulon, Jean-Loup, Erb, Tobias J
Published in Nature communications (05.07.2022)
Published in Nature communications (05.07.2022)
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Journal Article
XTMS: pathway design in an eXTended metabolic space
Carbonell, Pablo, Parutto, Pierre, Herisson, Joan, Pandit, Shashi Bhushan, Faulon, Jean-Loup
Published in Nucleic acids research (01.07.2014)
Published in Nucleic acids research (01.07.2014)
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Journal Article
Microbial Genes for a Circular and Sustainable Bio-PET Economy
Salvador, Manuel, Abdulmutalib, Umar, Gonzalez, Jaime, Kim, Juhyun, Smith, Alex A, Faulon, Jean-Loup, Wei, Ren, Zimmermann, Wolfgang, Jimenez, Jose I
Published in Genes (16.05.2019)
Published in Genes (16.05.2019)
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Journal Article
Origins of Specificity and Promiscuity in Metabolic Networks
Carbonell, Pablo, Lecointre, Guillaume, Faulon, Jean-Loup
Published in The Journal of biological chemistry (23.12.2011)
Published in The Journal of biological chemistry (23.12.2011)
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Journal Article
The automated Galaxy-SynBioCAD pipeline for synthetic biology design and engineering
Hérisson, Joan, Duigou, Thomas, du Lac, Melchior, Bazi-Kabbaj, Kenza, Sabeti Azad, Mahnaz, Buldum, Gizem, Telle, Olivier, El Moubayed, Yorgo, Carbonell, Pablo, Swainston, Neil, Zulkower, Valentin, Kushwaha, Manish, Baldwin, Geoff S, Faulon, Jean-Loup
Published in Nature communications (29.08.2022)
Published in Nature communications (29.08.2022)
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Journal Article
Genome scale enzyme–metabolite and drug–target interaction predictions using the signature molecular descriptor
Faulon, Jean-Loup, Misra, Milind, Martin, Shawn, Sale, Ken, Sapra, Rajat
Published in Bioinformatics (15.01.2008)
Published in Bioinformatics (15.01.2008)
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Journal Article
Boolean dynamics of genetic regulatory networks inferred from microarray time series data
Martin, Shawn, Zhang, Zhaoduo, Martino, Anthony, Faulon, Jean-Loup
Published in Bioinformatics (01.04.2007)
Published in Bioinformatics (01.04.2007)
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Journal Article
Systems chemical biology
Faulon, Jean-Loup, Oprea, Tudor I, Tropsha, Alexander, Rintoul, Mark D
Published in Nature chemical biology (01.08.2007)
Published in Nature chemical biology (01.08.2007)
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Journal Article
Validation of RetroPath, a computer-aided design tool for metabolic pathway engineering
Fehér, Tamás, Planson, Anne-Gaëlle, Carbonell, Pablo, Fernández-Castané, Alfred, Grigoras, Ioana, Dariy, Ekaterina, Perret, Alain, Faulon, Jean-Loup
Published in Biotechnology journal (01.11.2014)
Published in Biotechnology journal (01.11.2014)
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Journal Article
biochem4j: Integrated and extensible biochemical knowledge through graph databases
Swainston, Neil, Batista-Navarro, Riza, Carbonell, Pablo, Dobson, Paul D, Dunstan, Mark, Jervis, Adrian J, Vinaixa, Maria, Williams, Alan R, Ananiadou, Sophia, Faulon, Jean-Loup, Mendes, Pedro, Kell, Douglas B, Scrutton, Nigel S, Breitling, Rainer
Published in PloS one (14.07.2017)
Published in PloS one (14.07.2017)
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Journal Article
Mapping the patent landscape of synthetic biology for fine chemical production pathways
Carbonell, Pablo, Gök, Abdullah, Shapira, Philip, Faulon, Jean‐Loup
Published in Microbial biotechnology (01.09.2016)
Published in Microbial biotechnology (01.09.2016)
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Journal Article