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List of works by Jean-Loup Faulon

3-D structural modeling of humic acids through experimental characterization, computer assisted structure elucidation and atomistic simulations. 1. Chelsea soil humic acid.

scientific article published in May 2003

A Sense of Balance: Experimental Investigation and Modeling of a Malonyl-CoA Sensor in Escherichia coli.

scientific article

A dataset of small molecules triggering transcriptional and translational cellular responses.

scientific article published on 27 February 2018

A deterministic algorithm for constrained enumeration of transmembrane protein folds

scientific article published in April 2005

A retrosynthetic biology approach to metabolic pathway design for therapeutic production

scientific article

A retrosynthetic biology approach to therapeutics: from conception to delivery ⬇️

scientific article published on 02 April 2012

An automated Design-Build-Test-Learn pipeline for enhanced microbial production of fine chemicals

scientific article published on 08 June 2018

Boolean dynamics of genetic regulatory networks inferred from microarray time series data

scientific article

Building a minimal and generalizable model of transcription factor-based biosensors: Showcasing flavonoids.

scientific article published on 24 May 2018

Carbon sequestration in Synechococcus Sp.: from molecular machines to hierarchical modeling.

scientific article published on January 2002

Cheminformatics ⬇️

scientific article

Compound toxicity screening and structure-activity relationship modeling in Escherichia coli

scientific article published on 9 November 2011

Computer-aided design for metabolic engineering

scientific article published on 02 April 2014

Custom-made transcriptional biosensors for metabolic engineering

scientific article published on 25 March 2019

Data mining PubChem using a support vector machine with the Signature molecular descriptor: classification of factor XIa inhibitors

scientific article

Designing novel polymers with targeted properties using the signature molecular descriptor

scientific article published in March 2006

Developing a methodology for an inverse quantitative structure-activity relationship using the signature molecular descriptor

scientific article

Development of a Biosensor for Detection of Benzoic Acid Derivatives in Saccharomyces cerevisiae

scientific article published on 01 January 2019

Editorial: Synthetic Biology – applying new paradigms at the interface of fundamental research and innovation ⬇️

scientific article published on July 1, 2011

Engineering antibiotic production and overcoming bacterial resistance ⬇️

scientific article published on June 10, 2011

Enumerating Molecules

scientific article published on 27 January 2005

Enumerating metabolic pathways for the production of heterologous target chemicals in chassis organisms

scientific article

Enzyme Discovery: Enzyme Selection and Pathway Design

scientific article published on 01 January 2018

Expanding Biosensing Abilities through Computer-Aided Design of Metabolic Pathways

scientific article published on 30 March 2016

Exploring the conformational space of membrane protein folds matching distance constraints

scientific article published on August 2003

Extended Metabolic Space Modeling

scientific article published in January 2018

Genome scale enzyme-metabolite and drug-target interaction predictions using the signature molecular descriptor.

scientific article

Identification of expression patterns of IL-2-responsive genes in the murine T cell line CTLL-2.

scientific article published on December 2007

Large scale active-learning-guided exploration for in vitro protein production optimization

scientific article published on 20 April 2020

Machine Learning of Designed Translational Control Allows Predictive Pathway Optimization in Escherichia coli

scientific article published on 07 January 2019

Mapping the patent landscape of synthetic biology for fine chemical production pathways

scientific article

Metabolic Perceptrons for Neural Computing in Biological Systems

Metabolic perceptrons for neural computing in biological systems

scientific article published on 28 August 2019

Microbial Genes for a Circular and Sustainable Bio-PET Economy.

scientific article

Models for Cell-Free Synthetic Biology: Make Prototyping Easier, Better, and Faster

scientific article published on 29 November 2018

Molecular signatures-based prediction of enzyme promiscuity

scientific article

Molecular structures enumeration and virtual screening in the chemical space with RetroPath2.0

Molecular structures enumeration and virtual screening in the chemical space with RetroPath2.0.

scientific article published on 19 December 2017

OMG: Open Molecule Generator

scientific article from 2012

On using graph-equivalent classes for the structure elucidation of large molecules

scientific article published in July 1992

Optimal bundling of transmembrane helices using sparse distance constraints

scientific article published on 31 August 2004

Optimizing Cell-Free Biosensors to Monitor Enzymatic Production

scientific article published on 02 August 2019

Origins of specificity and promiscuity in metabolic networks

scientific article published on 3 November 2011

PartsGenie: an integrated tool for optimising and sharing synthetic biology parts

scholarly article published 15 September 2017

PartsGenie: an integrated tool for optimizing and sharing synthetic biology parts

scholarly article by Neil Swainston published in February 2018

Plug-and-Play Metabolic Transducers Expand the Chemical Detection Space of Cell-Free Biosensors

Plug-and-play metabolic transducers expand the chemical detection space of cell-free biosensors

PrecisePrimer: an easy-to-use web server for designing PCR primers for DNA library cloning and DNA shuffling

scientific article

Predicting protein-protein interactions using signature products

scientific article published on 19 August 2004

Prediction of beta-strand packing interactions using the signature product

scientific article

Reinforcement Learning for Bioretrosynthesis

scientific article published on 30 December 2019

RetroPath2.0: A retrosynthesis workflow for metabolic engineers

article published in 2017

RetroPath2.0: A retrosynthesis workflow for metabolic engineers.

scientific article published on 9 December 2017

RetroRules: a database of reaction rules for engineering biology

scientific article published on 01 January 2019

Retropath: automated pipeline for embedded metabolic circuits

scientific article published on 16 October 2013

Retrosynthetic Design of Heterologous Pathways ⬇️

scientific article published on 01 January 2013

Reverse engineering chemical structures from molecular descriptors: how many solutions?

scientific article

SYNBIOCHEM-a SynBio foundry for the biosynthesis and sustainable production of fine and speciality chemicals

scientific article

Selenzyme: Enzyme selection tool for pathway design

scientific article published on 7 February 2018

Selenzyme: Enzyme selection tool for pathway design

Semisupervised Gaussian Process for Automated Enzyme Search.

scientific article published on 23 March 2016

SensiPath: computer-aided design of sensing-enabling metabolic pathways

scientific article published on 22 April 2016

Sensing new chemicals with bacterial transcription factors

scientific article

Sensitivity analysis of a computational model of the IKK NF-kappaB IkappaBalpha A20 signal transduction network

scientific article published on 12 October 2007

Statistical ensemble analysis for simulating extrinsic noise-driven response in NF-κB signaling networks

scientific article

Stereo signature molecular descriptor

scientific article

Stochastic Generator of Chemical Structure. 1. Application to the Structure Elucidation of Large Molecules

scientific article published in September 1994

Stochastic Generator of Chemical Structure. 2. Using Simulated Annealing To Search the Space of Constitutional Isomers

scientific article (publication date: 1996)

Systems chemical biology

scientific article

The signature molecular descriptor. 1. Using extended valence sequences in QSAR and QSPR studies

scientific article published in May 2003

The signature molecular descriptor. 2. Enumerating molecules from their extended valence sequences

scientific article

The signature molecular descriptor. 3. Inverse-quantitative structure-activity relationship of ICAM-1 inhibitory peptides

scientific article published in March 2004

The signature molecular descriptor. 4. Canonizing molecules using extended valence sequences.

scientific article

Toward Quantitative Structure-Property Relationships for Charge Transfer Rates of Polycyclic Aromatic Hydrocarbons

scientific article published on 25 July 2011

Understanding virulence mechanisms in M. tuberculosis infection via A circuit-based simulation framework

scientific article published on 01 January 2008

Use of a designed peptide array to infer dissociation trends for nontryptic peptides in quadrupole ion trap and quadrupole time-of-flight mass spectrometry

scientific article published on 14 September 2007

Using product kernels to predict protein interactions

scientific article published on January 2008

Validation of RetroPath, a computer-aided design tool for metabolic pathway engineering.

scientific article published on 15 October 2014

XTMS: pathway design in an eXTended metabolic space

scientific article published on 3 May 2014

biochem4j: Integrated and extensible biochemical knowledge through graph databases.

scientific article published on 14 July 2017

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