This page presents the main research outputs of the group, including peer-reviewed scientific publications, patents and research software developed in close connection with our experimental and methodological work. Together, these outputs reflect our commitment to quantitative science, reproducibility, and open research practices in microfluidics, droplets, and immunology.

The complete and up-to-date list of publications is maintained below.

A short selection of publications representative of our core research directions in microfluidics, droplet-based systems, biophysics and immunology:

  • Alcanivorax borkumensis biofilms enhance oil degradation by interfacial tubulation
    Science (2023)

  • Phenotyping polarization dynamics of immune cells using a lipid droplet–cell pairing microfluidic platform
    Cell Reports Methods (2022)

  • A multiparametric, quantitative and high-throughput assay to determine the influence of target size on phagocytic uptake
    Biophysical Journal (2019)

  • Design of a microfluidic and microscopic toolbox for the ultra-wide spatio-temporal study of plant protoplast development and physiology
    Plant Methods (2019)

(See full publication list below.)

Articles and Proceedings

2026

[40] C. Pompili, M. Depierre, S. Debrais, H. MC von Giesen, H. Uhl, V. Mignon, B. Saubamea, M. Foretz, B. Viollet, B. Dumat, J.-M. Mallet, J. Fattaccioli, F. Niedergang.
Phagocytosis by the Macrophage Mannose Receptor relies on AMPK to control microtubules and actin dynamics
Under review

[39] I. Coghill, F. Pham, M. Mandal, A. Lahlou, Y. Shpinov, J. Fattaccioli, T. Le Saux, L. Jullien.
Spatiotemporal Light Modulation for Optical Sectioning, Diffusion Measurement and Parallelized Experiments with a Dual-DMD Microscope
Preprint — Optica Open (130871)

[38] S. Michelis‡, H. Uhl‡, F. Niedergang, J. Fattaccioli, B. Dumat*, J.-M. Mallet*.
Targeted fluorescent lipid microparticles for quantitative measurement of phagosomal pH
‡: equal contribution
Chemistry - A European Journal, 2026; 0:e71237 [doi]

2025

[37] A. Chargueraud, L. Kool, J. Fattaccioli*.
Fully integrated automatic microfluidic setup for immobilization, analysis and non-selective release of particles
Micro and Nano Engineering, In Press (2025) [doi]

[36] L. Huang, R. Lopes Dos Santos, S. Labdi, G. Lamour, O. Maciejak, M. Malo, J. Fattaccioli, C. Campillo.
A microfluidic platform for actin-based membrane remodeling reveals the stabilizing role of branched actin networks on lipid microdomains
Small Science (2025) [doi]

[35] L. Bogdziewiez, R. Froeling, P. Schoppl, J. Juquel, J. Antoniadi, V. Skalicky, A. Mathey, J. Fattaccioli, J. Sprakel, S. Verger.
The Q-Warg Pipeline: A Robust and Versatile Workflow for Quantitative Analysis of Protoplast Culture Conditions
Plant Direct, In Press (2025) [doi]

[34] E. Lu, W. Flores Cisternas, H. Uhl, A. Chargueraud, Q. Grimal, G. Renaud, J.-G. Minonzio, J. Fattaccioli*.
Assessing ultrasonic and optical flow velocimetry in a millifluidic device using oil-in-water emulsions as blood mimicking fluid
Micro and Nano Engineering, 100298 (2025) [doi]

[33] N. Ruyssen*, G. Fina, R. Allena, M.C. Jullien, J. Fattaccioli.
Spanwise dispersion optimizes the efficiency of dense microfluidic trap arrays
Computers & Fluids, 106643 (2025) [doi]

2024

[32] C. Hu, E. Lu, L. Lacour, N. Delsuc, B. Bresson, J.-M. Mallet, J. Fattaccioli.
Shaping, Degradation And Drug Release Of Biosourced Particles Made From Acrylated Vegetable Oils
ChemRxiv (2024) [doi]

[31] M. Prudhomme, C. Lakhdar, J. Fattaccioli, F. Chollet*.
Functionalization of microbubbles in a microfluidic chip for biosensing applications
Biomedical Microdevices 26, 39 (2024) [doi]

[30] B. Cocom-Chan, H. Khakzad, M. Konate, D. Isui-Aguilar, C. Bello, C. Valencia-Gallardo, Y. Zarrouk, J. Fattaccioli, A. Mauviel, D. Javelaud, G. Tran Van Nhieu.
IpaA reveals distinct modes of vinculin activation during Shigella invasion and cell-matrix adhesion
Life Science Alliance 7 (8) e202302418 (2024) [doi]

[29] S. Michelis, C. Pompili, B. Dumat, F. Niedergang, J. Fattaccioli, J.-M. Mallet.
FRET-sensing of receptor binding at the interface of targeted biomimetic microparticles functionalized with tunable fluorescent lipids
ACS Applied Bio Materials (2024) [doi]

2023

[28] M. Prasad, N. Obana, S.-Z. Lin, K. Sakai, C. Blanch-Mercader, J. Prost, N. Nomura, J.-F. Rupprecht*, J. Fattaccioli*, A. S. Utada*.
Alcanivorax borkumensis Biofilms Enhance Oil Degradation By Interfacial Tubulation
Science 381, 748–753 (2023) [doi]
Perspective: Bacteria stretch and bend oil to feed their appetite, T. McGenity and P.-P. Laissue [url]
News in Physics Today: How bacteria help clean up oil spills [url]

2022

[27] L. Pinon, N. Ruyssen, J. Pineau, O. Mesdjian, D. Cuvelier, R. Allena, S. Asnacios, A. Asnacios, P. Pierobon*, J. Fattaccioli*.
Phenotyping Polarization Dynamics Of Immune Cells Using A Lipid Droplet–Cell Pairing Microfluidic Platform
Cell Reports Methods (2022) [doi]

[26] J. Pineau, L. Pinon, O. Mesdjian, J. Fattaccioli, A.-M. Lennon-Duménil, P. Pierobon*.
Microtubules restrict F-actin polymerization to the immune synapse via GEF-H1 to maintain polarity in lymphocytes
eLife (2022) [doi]

2021

[25] O. Mesdjian‡, N. Ruyssen‡, M.-C. Jullien, R. Allena, J. Fattaccioli*.
Enhancing the capture efficiency and homogeneity of single-layer flow-through trapping microfluidic devices using oblique hydrodynamic streams
Microfluidics and Nanofluidics 25, 91 (2021) [doi]
‡: equal contribution

2019

[24] B. Dumat‡, L. Montel‡, P. Matton, L. Pinon, L. Cattiaux, J. Fattaccioli*, J.M. Mallet*.
Mannose-coated fluorescent emulsion droplets: specific biosensors for Mannose Receptor-induced phagocytosis
ACS Applied Bio Materials 2, 11, 5118–5126 (2019) [doi]
‡: equal contribution

[23] K. Sakai, F. Charlot, T. Le Saux, S. Bonhomme, F. Nogué, J.C. Palauqui*, J. Fattaccioli*.
Design of a microfluidic and microscopic toolbox for the ultra-wide spatio-temporal study of plant protoplast development and physiology
Plant Methods 15, 19 (2019) [doi]
Highlighted in La Recherche (Nov. 2019) [url]

[22] L. Montel, L. Pinon, J. Fattaccioli*.
A multiparametric, quantitative and high-throughput assay to determine the influence of target size on phagocytic uptake
Biophysical Journal 117 (3), 408–419 (2019) [doi]

[21] C. Vié, J. Fattaccioli*, P. Jacq*.
Introducing digital microfluidics concepts in chemistry using a macroscopic droplet generator
Journal of Chemical Education 96 (4), 797–800 (2019) [doi]

[20] M. Prasad, N. Obana, K. Sakai, Y. Nakayama, S. Miyazaki, M. Toyofuku, J. Fattaccioli, N. Nomura, A.S. Utada*.
Point mutations lead to increased levels of c-di-GMP and phenotypic changes to colony biofilm morphology in Alcanivorax borkumensis SK2
Microbes and Environments 34 (1), 104–107 (2019) [doi]

2018

[19] L. Pinon, L. Montel, O. Mesdjian, M. Bernard, A. Michel, C. Ménager, J. Fattaccioli*.
Kinetically-enhanced fabrication of homogeneous biomimetic and functional emulsion droplets
Langmuir 34 (50), 15319–15326 (2018) [doi]

[18] F.M. Allioux*, P. Kapruwan, N. Milne, L. Kong, J. Fattaccioli, Y. Chen, L.F. Dumée*.
Electro-capture of heavy metal ions with carbon cloth integrated microfluidic devices
Separation and Purification Technology 194, 26–32 (2018) [doi]

2016

[17] S. Quignard*, G. Frébourg, Y. Chen, J. Fattaccioli*.
Nanometric emulsions encapsulating solid particles as alternative carriers for intracellular delivery
Nanomedicine 11 (16), 2059–2072 (2016) [pdf]

[16] D. Molino, S. Quignard, C. Gruget, F. Pincet, Y. Chen, M. Piel, J. Fattaccioli*.
On-chip quantitative measurement of mechanical stresses during cell migration with emulsion droplets
Scientific Reports 6, 29113 (2016) [doi]

[15] O. Mesdjian, Y. Chen, J. Fattaccioli*.
Luminescent and absorptive metal-coated emulsions for micro-velocimetry
Microelectronic Engineering 158, 69–74 (2016) [doi]

2015

[14] K. Ben M’Barek, D. Molino, S. Quignard, Y. Chen, P. Chavrier, J. Fattaccioli*.
Phagocytosis of immunoglobulin-coated emulsion droplets
Biomaterials 51, 270–277 (2015) [doi]

2014

[13] S. Quignard, Y. Chen, M. d’Ischia, J. Fattaccioli*.
UV-induced fluorescence of polydopamine-coated emulsion droplets
ChemPlusChem 79 (9), 1254–1257 (2014) [doi]
Highlighted in Wiley-VCH Hot Topics – Surfaces and Interfaces

[12] G.M. Nocera, K. Ben M’Barek, D.G. Bazzoli, G. Fraux, M. Bontems-Van Heijenoort, J. Chokki, S. Georgeault, Y. Chen, J. Fattaccioli*.
Fluorescent microparticles fabrication through chemical coating of O/W emulsion droplets with a thin metallic film
RSC Advances 4 (23), 11564–11568 (2014) [doi]

[11] C. Longuet, A. Yamada, Y. Chen, D. Baigl, J. Fattaccioli*.
Spatially-controlled crystallization in microfluidics chambers
Journal of Crystal Growth 386, 179–182 (2014) [doi]

2012

[10] J.H. Park, J. Fattaccioli, H. Fujita, B.J. Kim.
Fabrication of aluminum/alumina patterns using localized anodization of aluminum
International Journal of Precision Engineering and Manufacturing 13 (5), 765–770 (2012) [doi]

2009

[9] C. Bottier, J. Fattaccioli, M.C. Tahran, R. Yokokawa, F.O. Morin, D. Collard, H. Fujita.
Active transport of oil droplets along oriented microtubules by kinesin molecular motors
Lab on a Chip 9, 1694–1700 (2009) [doi]

[8] J.H. Park, J. Fattaccioli, N. Takama, H. Fujita, B.J. Kim.
Localized anodization of aluminum for the formation of high aspect ratio aluminum/alumina patterns
ASPEN’2009 — Asian Society for Precision Engineering and Nanotechnology Conference [pdf]

[7] J. Fattaccioli, A. Ikeda, J.G. Kim, N. Takama, B.J. Kim.
Visual observation of a PDMS tip in liquid microcontact printing
IEEE MEMS’2009 Conference Proceedings, pp. 681–684 [doi]

[6] S. Akiyama, Y.T. Cheng, J. Fattaccioli, N. Takama, P. Löw, C. Bergaud, B.J. Kim.
Surface-temperature control of silicon nanowires in dry and liquid conditions
IEEE MEMS’2009 Conference Proceedings, pp. 567–570 [doi]

2008

[5] J. Fattaccioli*, J. Baudry, E. Bertrand, C. Goubault, N. Henry, J. Bibette.
Size and fluorescence measurements of individual droplets by flow cytometry
Soft Matter 5, 2232–2238 (2008) [doi]

[4] J. Fattaccioli*, J. Baudry, F. Brochard-Wyart, N. Henry, J. Bibette.
Specific wetting probed with biomimetic droplets
Soft Matter 4, 2434–2440 (2008) [doi]

[3] Y.T. Cheng, J. Fattaccioli, S. Akiyama, N. Takama, Y. Akagi, S.J. Cho, B.J. Kim.
Surface-temperature mapping on suspended silicon nanowire using fluorescent thermometry under dry and liquid conditions
MNE 2008 — Micro and Nano Engineering Conference [pdf]

[2] C. Bottier, M.C. Tahran, J. Fattaccioli, F.O. Morin, B.J. Kim, H. Fujita.
Direct transportation and electrofusion of oil droplets in a microfluidic device
IEEE MEMS’2008 Conference Proceedings, pp. 563–566 [doi]

2005

[1] S.K. Mandal, N. Lequeux, B. Rotenberg, M. Tramier, J. Fattaccioli, J. Bibette, B. Dubertret.
Encapsulation of magnetic and fluorescent nanoparticles in emulsion droplets
Langmuir 21, 4175–4179 (2005) [doi]

Book Chapters and Methods

[B3] C. Pompili, H. Uhl, S. Michelis, B. Dumat, J.-M. Mallet, J. Fattaccioli, F. Niedergang.
Targeted fluorescent lipid microparticles for quantitative measurement of phagosomal pH
Methods & Protocols — Exocytosis and Endocytosis (2026, In Press)

[B2] L. Bruno, H. Uhl, L. Vimeux, M. Karnat, J.-F. Rupprecht, E. Donnadieu, J. Fattaccioli, P. Pierobon.
Lipid droplet–based passive tracking to probe tissue dynamics in lymph node slices
Methods in Molecular Biology: Real-Time Imaging of Immune Cells (2026, In Press)

[B1] J. Pineau, L. Pinon, J. Fattaccioli*, P. Pierobon*.
Functionalized lipid droplets and microfluidics approach to study immune cell polarity in vitro
In: Baldari C.T., Dustin M.L. (eds) The Immune Synapse. Methods in Molecular Biology, vol. 2654. Humana, New York (2023) [doi]

Patents

[P5] J. Fattaccioli, C. Hu — CNRS / Sorbonne Université / PSL.
Method for manufacturing acrylated epoxidized plant oil particles
WO2023237670A1 (PCT/EP2023/065379, 2023) — EP4536788A1 pending [espacenet]

[P4] J. Fattaccioli, L. Pinon, L. Montel — CNRS / Sorbonne Université / PSL.
Colloidal particles homogeneously functionalized by biomolecules
EP4344770A2 (EP24157456.5A, priorité 2018, publication 2024) — Pending [espacenet]

[P3] J. Fattaccioli.
Méthode de dépôt de polymère sur des particules liquides
PCT/FR2014/050461 — WO2014132012A1 (2013) [espacenet]

[P2] M. Goutayer, I. Texier-Nogues, J. Fattaccioli, J. Bibette.
Émulsions fluorescentes pour l’imagerie optique
WO2008125747A2 (2008) [pdf]

[P1] K. Nakamura, T. Sonobe, H. Fujita, B.J. Kim, J. Fattaccioli.
Cylindrical coil, cylindrical micromotor and production method of cylindrical coil
JP2009247191A (2009) [pdf]

Research Software and Open Tools

We develop open-source and custom software tools in direct support of our research activities in image analysis, microfluidics, and data science. These tools are designed to enable quantitative analysis, facilitate reproducibility, and support both research and training activities.

You can find most of the codes developed or used in publications on our Github account.

Background removal from time-lapse image stacks

Novikova, A., Sima, D., Laïmouche, L., & Fattaccioli, J. (2024).
Zenodo. https://doi.org/10.5281/zenodo.10626975

GitHub repo: https://github.com/FattaccioliLab/Background-Removal-Plugin—ImageJ

Open science and reuse

Whenever possible, software tools, scripts, and notebooks are shared through open repositories or teaching material. This approach supports open science, method sharing, and lifelong learning programs in microfluidics.

Research Software and Open Tools

We develop open-source and custom software tools in direct support of our research activities in image analysis, microfluidics, and data science. These tools are designed to enable quantitative analysis, facilitate reproducibility, and support both research and training activities.

You can find most of the codes developed or and used in publications on our Github account

Background removal from time-lapse image stacks:

Novikova, A., Sima, D., Laïmouche, L., & Fattaccioli, J. (2024).
Zenodo. https://doi.org/10.5281/zenodo.10626975

Github repo : https://github.com/FattaccioliLab/Background-Removal-Plugin—ImageJ

Open science and reuse

Whenever possible, software tools, scripts, and notebooks are shared through open repositories or teaching material. This approach supports open science, method sharing, and lifelong learning programs in microfluidics.