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Showing 12 publications by Jean-Baptiste Lugagne

Host-Aware Control of Gene Expression using Data-Enabled Predictive Control

Perreault L, Kempf I, Sechkar K, Lugagne J-B & Papachristodoulou A (2026)

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BibTeX 
@misc{hostawarecontro-2026/1,
  title={Host-Aware Control of Gene Expression using Data-Enabled Predictive Control},
  author={Perreault L, Kempf I, Sechkar K, Lugagne J-B & Papachristodoulou A},
  year = "2026"
}

Label-free nanoscopy of cell metabolism by ultrasensitive reweighted visible stimulated Raman scattering.

Lin H, Seitz S, Tan Y, Lugagne J-B, Wang L et al. (2025), Nature methods, 22(5), 1040-1050

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BibTeX View PDF 
@article{labelfreenanosc-2025/5,
  title={Label-free nanoscopy of cell metabolism by ultrasensitive reweighted visible stimulated Raman scattering.},
  author={Lin H, Seitz S, Tan Y, Lugagne J-B, Wang L et al.},
  journal={Nature methods},
  volume={22},
  pages={1040-1050},
  year = "2025"
}

Deep model predictive control of gene expression in thousands of single cells.

Lugagne J-B, Blassick CM & Dunlop MJ (2024), Nature communications, 15(1), 2148

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BibTeX View PDF 
@article{deepmodelpredic-2024/3,
  title={Deep model predictive control of gene expression in thousands of single cells.},
  author={Lugagne J-B, Blassick CM & Dunlop MJ},
  journal={Nature communications},
  volume={15},
  pages={2148},
  year = "2024"
}

Deep neural networks for predicting single cell responses and probability landscapes

Klumpe H, Lugagne J-B, Khalil A & Dunlop M (2023)

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@misc{deepneuralnetwo-2023/,
  title={Deep neural networks for predicting single cell responses and probability landscapes},
  author={Klumpe H, Lugagne J-B, Khalil A & Dunlop M},
  year = "2023"
}

DeLTA 2.0: A deep learning pipeline for quantifying single-cell spatial and temporal dynamics.

O'Connor OM, Alnahhas RN, Lugagne J-B & Dunlop MJ (2022), PLoS computational biology, 18(1), e1009797

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BibTeX View PDF 
@article{deltaadeeplearn-2022/1,
  title={DeLTA 2.0: A deep learning pipeline for quantifying single-cell spatial and temporal dynamics.},
  author={O'Connor OM, Alnahhas RN, Lugagne J-B & Dunlop MJ},
  journal={PLoS computational biology},
  volume={18},
  pages={e1009797},
  year = "2022"
}

Microsecond fingerprint stimulated Raman spectroscopic imaging by ultrafast tuning and spatial-spectral learning.

Lin H, Lee HJ, Tague N, Lugagne J-B, Zong C et al. (2021), Nature communications, 12(1), 3052

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BibTeX View PDF 
@article{microsecondfing-2021/5,
  title={Microsecond fingerprint stimulated Raman spectroscopic imaging by ultrafast tuning and spatial-spectral learning.},
  author={Lin H, Lee HJ, Tague N, Lugagne J-B, Zong C et al.},
  journal={Nature communications},
  volume={12},
  pages={3052},
  year = "2021"
}

DeLTA: Automated cell segmentation, tracking, and lineage reconstruction using deep learning.

Lugagne J-B, Lin H & Dunlop MJ (2020), PLoS computational biology, 16(4), e1007673

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BibTeX View PDF 
@article{deltaautomatedc-2020/4,
  title={DeLTA: Automated cell segmentation, tracking, and lineage reconstruction using deep learning.},
  author={Lugagne J-B, Lin H & Dunlop MJ},
  journal={PLoS computational biology},
  volume={16},
  pages={e1007673},
  year = "2020"
}

Identification of individual cells from z-stacks of bright-field microscopy images.

Lugagne J-B, Jain S, Ivanovitch P, Ben Meriem Z, Vulin C et al. (2018), Scientific reports, 8(1), 11455

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BibTeX View PDF 
@article{identificationo-2018/7,
  title={Identification of individual cells from z-stacks of bright-field microscopy images.},
  author={Lugagne J-B, Jain S, Ivanovitch P, Ben Meriem Z, Vulin C et al.},
  journal={Scientific reports},
  volume={8},
  pages={11455},
  year = "2018"
}

Balancing a genetic toggle switch by real-time feedback control and periodic forcing.

Lugagne J-B, Sosa Carrillo S, Kirch M, Köhler A, Batt G et al. (2017), Nature communications, 8(1), 1671

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BibTeX View PDF 
@article{balancingagenet-2017/11,
  title={Balancing a genetic toggle switch by real-time feedback control and periodic forcing.},
  author={Lugagne J-B, Sosa Carrillo S, Kirch M, Köhler A, Batt G et al.},
  journal={Nature communications},
  volume={8},
  pages={1671},
  year = "2017"
}

Extracellular Vesicle Production Loaded with Nanoparticles and Drugs in a Trade-off between Loading, Yield and Purity: Towards a Personalized Drug Delivery System.

Piffoux M, Silva AKA, Lugagne J-B, Hersen P, Wilhelm C et al. (2017), Advanced biosystems, 1(5), e1700044

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@article{extracellularve-2017/5,
  title={Extracellular Vesicle Production Loaded with Nanoparticles and Drugs in a Trade-off between Loading, Yield and Purity: Towards a Personalized Drug Delivery System.},
  author={Piffoux M, Silva AKA, Lugagne J-B, Hersen P, Wilhelm C et al.},
  journal={Advanced biosystems},
  volume={1},
  pages={e1700044},
  year = "2017"
}

Noise propagation in synthetic gene circuits for metabolic control.

Oyarzún DA, Lugagne J-B & Stan G-BV (2015), ACS synthetic biology, 4(2), 116-125

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BibTeX View PDF 
@article{noisepropagatio-2015/2,
  title={Noise propagation in synthetic gene circuits for metabolic control.},
  author={Oyarzún DA, Lugagne J-B & Stan G-BV},
  journal={ACS synthetic biology},
  volume={4},
  pages={116-125},
  year = "2015"
}

Control of a Bi-Stable Genetic System via Parallelized Reinforcement Learning

Henry R & Lugagne J-B (0)

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@misc{controlofabista-/,
  title={Control of a Bi-Stable Genetic System via Parallelized Reinforcement Learning},
  author={Henry R & Lugagne J-B}
}