Documentation
Français (FR)

Anglais (EN)

Olivier Borkowski

39

Documents

Domaines de recherche

Sciences du Vivant [q-bio]

Compétences

Cell-free Molecular Biology Machine Learning Mathematical modelling Synthetic Biology System Biology Transcriptomics Microbiology

Publications

	Celullar Economics in Cell-Free Olivier Borkowski Master. Université paris-saclay, France. 2024 Cours hal-04405950v1
	Cell-free systems Gene expression outside of the cell Olivier Borkowski Engineering school. AgroParisTech - INRAE - Campus Agro Paris-Saclay, France. 2023 Cours hal-04336158v1

	What remains from living cells in bacterial lysate-based cell-free systems Léa Wagner , Matthieu Jules , Olivier Borkowski Computational and Structural Biotechnology Journal, 2023, 21, pp. 3173-3182. ⟨10.1016/j.csbj.2023.05.025⟩ Article dans une revue hal-04118475v1
	Large scale active-learning-guided exploration for in vitro protein production optimization Olivier Borkowski , Mathilde Koch , Agnes Zettor , Amir Pandi , Angelo Cardoso Batista Nature Communications, 2020, 11 (1), pp.1872. ⟨10.1038/s41467-020-15798-5⟩ Article dans une revue pasteur-02552065v1
	Optimizing cell-free biosensors to monitor enzymatic production. Amir Pandi , Ioana Grigoras , Olivier Borkowski , Jean-Loup Faulon ACS Synthetic Biology, 2019, 8 (8), pp.1952-1957. ⟨10.1021/acssynbio.9b00160⟩ Article dans une revue hal-02625334v1
	Optimizing Cell-Free Biosensors to Monitor Enzymatic Production Amir Pandi , Ioana Grigoras , Olivier Borkowski , Jean-Loup Faulon ACS Synthetic Biology, 2019, 8 (8), pp. 1952-1957. ⟨10.1021/acssynbio.9b00160⟩ Article dans une revue hal-04275316v1
	Custom-made transcriptional biosensors for metabolic engineering. Mathilde Koch , Amir Pandi , Olivier Borkowski , Angelo Cardoso Batista , Jean-Loup Faulon Current Opinion in Biotechnology, 2019, 59, pp.78-84. ⟨10.1016/j.copbio.2019.02.016⟩ Article dans une revue hal-02627127v1
	Custom-made transcriptional biosensors for metabolic engineering Mathilde Koch , Amir Pandi , Olivier Borkowski , A.C. Batista , Jean-Loup Faulon Current Opinion in Biotechnology, 2019, 59, pp. 78-84. ⟨10.1016/j.copbio.2019.02.016⟩ Article dans une revue hal-04275369v1
	Burden-driven feedback control of gene expression Francesca Ceroni , Alice Boo , Simone Furini , Thomas Gorochowski , Olivier Borkowski Nature Methods, 2018, 15 (5), pp.387-393. ⟨10.1038/nmeth.4635⟩ Article dans une revue hal-03851810v1
	Cell-free prediction of protein expression costs for growing cells Olivier Borkowski , Carlos Bricio , Michela Murgiano , Brooke Rothschild-Mancinelli , Guy-Bart Stan Nature Communications, 2018, 9 (1), pp.1457. ⟨10.1038/s41467-018-03970-x⟩ Article dans une revue hal-03851801v1
	Models for cell-free synthetic biology: Make prototyping easier, better, and faster Mathilde Koch , Jean-Loup Faulon , Olivier Borkowski Frontiers in Bioengineering and Biotechnology, 2018, 6, pp.1-6. ⟨10.3389/fbioe.2018.00182⟩ Article dans une revue hal-02621501v1
	Overloaded and stressed: whole-cell considerations for bacterial synthetic biology Olivier Borkowski , Francesca Ceroni , Guy-Bart Stan , Tom Ellis Current Opinion in Microbiology, 2016, 33, ⟨10.1016/j.mib.2016.07.009⟩ Article dans une revue hal-03851923v1
	On the record with E. coli DNA Olivier Borkowski , Charlie Gilbert , Tom Ellis Science, 2016, 353 (6298), pp.444-445. ⟨10.1126/science.aah4438⟩ Article dans une revue hal-03851816v1
	Translation elicits a growth rate-dependent, genome-wide, differential protein production in Bacillus subtilis Olivier Borkowski , Anne Goelzer , Marc Schaffer , Magali Calabre , Ulrike Mäder Molecular Systems Biology, 2016, 12 (5), pp.870. ⟨10.15252/msb.20156608⟩ Article dans une revue hal-02640581v1

	A large-scale exploration of cell-free compositions to maximize protein production using active learning Olivier Borkowski , Mathilde Koch , Agnès Zettor , Amir Pandi , Angelo Cardoso Batista Structural Biology and Chemistry Department days, Dec 2019, paris, France Poster de conférence hal-04292156v1
	Large scale active-learning-guided exploration for in vitro protein production optimization Olivier Borkowski , Mathilde Koch , Agnès Zettor , Jean-Loup Faulon Structural Biology and Chemistry Department days, Jun 2019, Paris, France Poster de conférence hal-03852944v1
	Cell-free prediction of protein expression costs for growing cells Olivier Borkowski , Carlos Bricio , Maria Murgiano , Guy-Bart Stan , Tom Ellis Synthetic Biology: Engineering, Evolution & Design conference, Jun 2018, Phoenix, United States Poster de conférence hal-03852928v1
	Cell-free prediction of protein expression costs for growing cells Olivier Borkowski , Carlos Bricio , Maria Murgiano , Guy-Bart Stan , Tom Ellis 1st European Congress on Cell-Free Synthetic Biology, Apr 2017, Ascona, Switzerland Poster de conférence hal-03852856v1
	Cell-free prediction of protein expression costs Olivier Borkowski , Guy-Bart Stan , Tom Ellis Control Engineering Synthetic Biology Workshop, Jul 2017, London, United Kingdom Poster de conférence hal-03852866v1
	Overloaded and stressed: whole-cell considerations for bacterial synthetic biology Olivier Borkowski , Francesca Ceroni , Guy-Bart Stan , Tom Ellis SBUK 2017, Nov 2017, Manchester, United Kingdom Poster de conférence hal-03852899v1
	Cell-free prediction of protein expression costs for growing cells Olivier Borkowski , Carlos Bricio , Maria Murgiano , Guy-Bart Stan , Tom Ellis SB7.0: The Seventh International Meeting on Synthetic Biology, Jun 2017, Singapore, Singapore Poster de conférence hal-03852886v1
	Cell-free prediction of protein expression costs in bacteria Olivier Borkowski , Guy-Bart Stan , Tom Ellis SBUK 2016, Nov 2016, Edinburgh, United Kingdom Poster de conférence hal-03852836v1
	Overloaded and stressed: whole-cell considerations for bacterial synthetic biology Olivier Borkowski , Francesca Ceroni , Guy-Bart Stan , Tom Ellis Synthetic Biology: Engineering, Evolution & Design conference, Jul 2016, Chicago, United States Poster de conférence hal-03852785v1
	Cell-free prediction of protein expression costs for growing cells Olivier Borkowski , Tom Ellis Synthetic Biology: Engineering, Evolution & Design conference, Jun 2015, Boston, United States Poster de conférence hal-03852769v1
	Hands-free control of heterologous gene expression in batch cultures Olivier Borkowski , Pakpoom Subsoontorn , Drew Endy e Synthetic Biology: Engineering, Evolution & Design conference, Jul 2014, Los angeles, United States Poster de conférence hal-03852754v1
	Autonomous control of heterologous gene expression in bacteria Olivier Borkowski , Pakpoom Subsoontorn , Drew Endy SYNBERC symposium, Jul 2014, Berkeley, United States Poster de conférence hal-03852736v1
	Hands-free control of heterologous gene expression in batch cultures Olivier Borkowski , Pakpoom Subsoontorn , Drew Endy Stanford BioX, Jul 2013, Stanford, United States Poster de conférence hal-03852719v1
	Growth-rate-dependent protein production in bacteria Olivier Borkowski , Anne Goelzer , Marc Schaffer , Magali Calabre , Ulrike Mäder 13th international conference on Systems Biology, 2012, 13th international conference on Systems Biology, Canada Poster de conférence hal-03852702v1

	Maximization of production in cell-free systems Olivier Borkowski Biomanufacturing and micorbiology symposium and workshop, Beckman, Mar 2024, Dublin, France Communication dans un congrès hal-04505662v1
	Study of the molecular mechanisms involved in the use of raffinose, a legume dietary fibre, by bacteria of the intestinal microbiota. Paul Biscarrat , Olivier Borkowski , Claire Cherbuy Symposium Micalis 2022, Dec 2022, Jouy-en-Josas, France Communication dans un congrès hal-04285907v1
	A large-scale exploration of cell-free compositions to maximize protein production using reinforcement learning Olivier Borkowski , Mathilde Koch , Jean-Loup Faulon EMBO workshop “Creating is Understand-ing: Synthetic Biology Masters Complexity, EMBO, Sep 2019, Heildelberg, Germany Communication dans un congrès hal-04275652v1
	A large-scale exploration of cell-free compositions to maximize protein production using active learning Olivier Borkowski , Mathilde Koch , Agnès Zettor , Amir Pandi , Angelo Cardoso Batista Cell Free Systems Conference, Dec 2019, Boston (MA), United States Communication dans un congrès hal-04291932v1
	Relationship between protein production and cell physiology Olivier Borkowski EUSYNBIOS symposium, Oct 2018, Toulouse, France Communication dans un congrès hal-04291918v1

	Build-aCell seminar Olivier Borkowski: Challenges and advantages of resource limitation in cell-free Olivier Borkowski 2023 Vidéo hal-04279327v1
	Active learning cell free protein production optimization Olivier Borkowski 2022 Vidéo hal-04279345v1

	Growth-rate-dependent protein production in bacteria Olivier Borkowski Molecular biology. Paris 5, 2013. English. ⟨NNT : ⟩ Thèse tel-03853024v1

	Hands-free control of heterologous gene expression in batch cultures Olivier Borkowski , Drew Endy , Pakpoom Subsoontorn 2022 Pré-publication, Document de travail hal-03851825v1

	Active learning leads to highly efficient predictions in cell-free systems Olivier Borkowski 2020 Article de blog scientifique hal-04279308v1

	Synthetic Biology at the Hand of Cell-Free Systems Amir Pandi , Olivier Borkowski , Jean-Loup Faulon Advances in Synthetic Biology, Springer Singapore, pp. 275-288, 2020, ⟨10.1007/978-981-15-0081-7_16⟩ Chapitre d'ouvrage hal-03852064v1