Thomas Boudier

36
Documents

Publications

Publications

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Modulation of SARS-CoV-2 spike binding to ACE2 through conformational selection

Prithwidip Saha , Ignacio Fernandez , Fidan Sumbul , Claire Valotteau , Dorota Kostrz et al.

Nature Nanotechnology, 2025, 20 (07), pp.926-934. ⟨10.1038/s41565-025-01908-1⟩

Article dans une revue hal-05109584v1

Spot Spine, a freely available ImageJ plugin for 3D detection and morphological analysis of dendritic spines

Jean-Francois Gilles , Philippe Mailly , Tiago Ferreira , Thomas Boudier , Nicolas Heck

F1000Research, 2024, 13, pp.176. ⟨10.12688/f1000research.146327.2⟩

Article dans une revue hal-04876006v1
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Coupled mechanical mapping and interference contrast microscopy reveal viscoelastic and adhesion hallmarks of monocyte differentiation into macrophages

Mar Eroles , Javier Lopez-Alonso , Alexandre Ortega , Thomas Boudier , Khaldoun Gharzeddine et al.

Nanoscale, 2023, 15 (29), pp.12255-12269. ⟨10.1039/D3NR00757J⟩

Article dans une revue hal-04237254v1
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Chromosomes distribute randomly to, but not within, human neutrophil nuclear lobes

Christine R Keenan , Michael J Mlodzianoski , Hannah D Coughlan , Naiara G Bediaga , Gaetano Naselli et al.

iScience, 2021, 24 (3), pp.102161. ⟨10.1016/j.isci.2021.102161⟩

Article dans une revue hal-03163183v1
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TAPAS: Towards Automated Processing and Analysis of multi-dimensional bioimage data

Jean-François Gilles , Thomas Boudier

F1000Research, 2020, 9, pp.1278. ⟨10.12688/f1000research.26977.1⟩

Article dans une revue hal-03369334v1

A novel generic dictionary-based denoising method for improving noisy and densely packed nuclei segmentation in 3D time-lapse fluorescence microscopy images

Lamees Nasser , Thomas Boudier

Scientific Reports, 2019, 9 (1), ⟨10.1038/s41598-019-41683-3⟩

Article dans une revue hal-02090769v1
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Structural basis for delta cell paracrine regulation in pancreatic islets

Rafael Arrojo E Drigo , Stefan Jacob , Concha F. García-Prieto , Xiaofeng Zheng , Masahiro Fukuda et al.

Nature Communications, 2019, 10, pp.3700. ⟨10.1038/s41467-019-11517-x⟩

Article dans une revue hal-02279607v1
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Shifting meiotic to mitotic spindle assembly in oocytes disrupts chromosome alignment

Isma Bennabi , Isabelle Quéguiner , Agnieszka Kolano , Thomas Boudier , Philippe Mailly et al.

EMBO Reports, 2018, 19, pp.368 - 381. ⟨10.15252/embr.201745225⟩

Article dans une revue hal-03003475v1
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Rapid synaptogenesis in the Nucleus Accumbens is induced by a single cocaine administration and stabilized by MAP Kinase interacting kinase 1 activity

Marc dos Santos , Marine Salery , Benoit Forget , Maria Alexandra Garcia Perez , Sandrine Betuing et al.

Biological Psychiatry, 2017, 82 (11), pp.806-818. ⟨10.1016/j.biopsych.2017.03.014⟩

Article dans une revue hal-01500913v1
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A novel toolbox to investigate tissue spatial organization applied to the study of the islets of Langerhans

Hoa Tran Thi Nhu , Per-Olof Berggren , Thomas Boudier , Rafael Arrojo E. Drigo

Scientific Reports, 2017, 7, pp.44261. ⟨10.1038/srep44261⟩

Article dans une revue hal-01492461v1
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Rapid Synaptogenesis in the Nucleus Accumbens Is Induced by a Single Cocaine Administration and Stabilized by Mitogen-Activated Protein Kinase Interacting Kinase-1 Activity

Jocelyne Caboche , Marc Dos Santos , Marine Salery , Benoit Forget , Maria Alexandra et al.

Biological Psychiatry, 2017, 82 (11), pp.806-818. ⟨10.1016/j.biopsych.2017.03.014⟩

Article dans une revue hal-03365856v1

Rapid Synaptogenesis in the Nucleus Accumbens Is Induced by a Single Cocaine Administration and Stabilized by Mitogen-Activated Protein Kinase Interacting Kinase-1 Activity

Marc dos Santos , Marine Salery , Benoit Forget , Maria Alexandra Garcia Perez , Sandrine Betuing et al.

Biological Psychiatry, 2017, 82 (11), pp.806-818. ⟨10.1016/j.biopsych.2017.03.014⟩

Article dans une revue hal-03429384v1

DiAna, an ImageJ tool for object-based 3D co-localization and distance analysis

Jean-François Gilles , Marc dos Santos , Thomas Boudier , Susanne Bolte , Nicolas Heck

Methods, 2017, 115, pp.55-64. ⟨10.1016/j.ymeth.2016.11.016⟩

Article dans une revue hal-02960218v1
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DiAna, an ImageJ tool for object-based 3D co-localization and distance analysis

Jean-François Gilles , Marc dos Santos , Thomas Boudier , Susanne Bolte , Nicolas Heck

Methods, 2016, 115, pp.55-64. ⟨10.1016/j.ymeth.2016.11.016⟩

Article dans une revue hal-01408946v1
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Biomineralization Patterns of Intracellular Carbonatogenesis in Cyanobacteria: Molecular Hypotheses

Jinhua Li , Isabel Margaret-Oliver , Nithavong Cam , Thomas Boudier , Marine Blondeau et al.

Minerals, 2016, 6 (1), pp.10. ⟨10.3390/min6010010⟩

Article dans une revue hal-01310553v1
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Functional Assessment of Genetic Variants with Outcomes Adapted to Clinical Decision-Making

Pierre Thouvenot , Barbara Ben Yamin , Lou Fourrière , Aurianne Lescure , Thomas Boudier et al.

PLoS Genetics, 2016, 12 (6), pp.e1006096. ⟨10.1371/journal.pgen.1006096⟩

Article dans une revue hal-01360165v1

A new automated 3D detection of synaptic contacts reveals the formation of cortico-striatal synapses upon cocaine treatment in vivo

Nicolas Heck , Marc dos Santos , Brahim Amairi , Marine Salery , Antoine Besnard et al.

Brain Structure and Function, 2015, 220 (5), pp.2953-2966. ⟨10.1007/s00429-014-0837-2⟩

Article dans une revue hal-02372576v1
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A generic classification-based method for segmentation of nuclei in 3D images of early embryos

Jaza Gul-Mohammed , Ignacio Arganda Carreras , Philippe Andrey , Vincent Galy , Thomas Boudier

BMC Bioinformatics, 2014, 15, pp.9. ⟨10.1186/1471-2105-15-9⟩

Article dans une revue hal-01204103v1

A generic classification-based method for segmentation of nuclei in 3D images of early embryos

Jaza Gul-Mohammed , Ignacio Arganda-Carreras , Philippe Andrey , Vincent Galy , Thomas Boudier

BMC Bioinformatics, 2014, 15 (1), pp.9. ⟨10.1186/1471-2105-15-9⟩

Article dans une revue hal-03953904v1
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The architecture of Rhodobacter sphaeroides chromatophores

Simon Scheuring , Reinat Nevo , Lu-Ning Liu , Stéphanie Mangenot , Dana Charuvi et al.

Biochimica biophysica acta (BBA) - Bioenergetics, 2014, 1837, pp.1263-1270. ⟨10.1016/j.bbabio.2014.03.011⟩

Article dans une revue inserm-01356860v1

Multiple binding of repressed mRNAs by the P-body protein Rck/p54

Michèle Ernoult-Lange , Sonia Baconnais , Maryannick Harper , Nicola Minshall , Sylvie Souquere et al.

RNA, 2012, 18 (9), pp.1702-1715. ⟨10.1261/rna.034314.112⟩

Article dans une revue hal-03065208v1
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High-speed atomic force microscopy: cooperative adhesion and dynamic equilibrium of junctional microdomain membrane proteins.

Adai Colom , Ignacio Casuso , Thomas Boudier , Simon Scheuring

Journal of Molecular Biology, 2012, 423 (2), pp.249-56. ⟨10.1016/j.jmb.2012.07.004⟩

Article dans une revue inserm-01363148v1

Tangentially Migrating Neurons Assemble a Primary Cilium that Promotes Their Reorientation to the Cortical Plate

Jean-Pierre Baudoin , Lucie Viou , Pierre-Serge Launay , Camilla Luccardini , Sergio Espeso Gil et al.

Neuron, 2012, 76 (6), pp.1108 - 1122. ⟨10.1016/j.neuron.2012.10.027⟩

Article dans une revue hal-01541253v1

Multiple binding of repressed mRNAs by the P-body protein Rck/p54

Michèle Ernoult-Lange , Sonia Baconnais , Maryannick Harper , Nicola Minshall , Sylvie Souquere et al.

RNA, 2012, 18 (9), pp.1702-1715. ⟨10.1261/rna.034314.112⟩

Article dans une revue hal-02994882v1
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Software for drift compensation, particle tracking and particle analysis of high-speed atomic force microscopy image series †

Mohamed Husain , Thomas Boudier , Perrine Paul-Gilloteaux , Ignacio Casuso , Simon Scheuring

Journal of Molecular Recognition, 2012, 25 ((5)), pp.292-8. ⟨10.1002/jmr.2187⟩

Article dans une revue istex inserm-01363229v1

Multiple binding of repressed mRNAs by the P-body protein Rck/p54

Michèle Ernoult-Lange , Sonia Baconnais , Maryannick Harper , Nicola Minshall , Sylvie Souquere et al.

RNA, 2012, pp.1702-1715. ⟨10.1261/rna.034314.112⟩

Article dans une revue hal-01540245v1

NEMO: a tool for analyzing gene and chromosome territory distributions from 3D-FISH experiments

Eddie Iannuccelli , Florence Mompart , Joël Gellin , Yvette Lahbib Mansais , Martine M. Yerle et al.

Bioinformatics, 2010, 26 (5), pp.696-697. ⟨10.1093/bioinformatics/btq013⟩

Article dans une revue hal-02662443v1

3D FISH for the quantification of methane- and sulphur-oxidizing endosymbionts in bacteriocytes of the hydrothermal vent mussel Bathymodiolus azoricus.

Sébastien Halary , Virginie Riou , Françoise Gaill , Thomas Boudier , Sébastien Duperron

international society for microbiological ecology, 2008, 2 (3), pp.284-92. ⟨10.1038/ismej.2008.3⟩

Article dans une revue hal-00325687v1
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Rapport préliminaire sur les activités de la mission archéologique franco-syrienne dans la micro-région d'Al-Rawda (Shamiyeh) : quatrième et cinquième campagnes (2005 et 2006)

Corinne Castel , Dorothée Archambault , Nazir Awad , Olivier Barge , Thomas Boudier et al.

Akkadica, 2008, 129 (1), pp.5-54

Article dans une revue halshs-00578096v1

3D FISH for the quantification of methane- and sulphur-oxidising endosymbionts in bacteriocytes of the hydrothermal vent mussel Bathymodiolus azoricus.

Sébastien Halary , Virginie Riou , Françoise Gaill , Thomas Boudier , Sébastien Duperron

The International Society of Microbiologial Ecology Journal, 2008, 2(3), pp.284-292

Article dans une revue hal-00420166v1

Tomography of bacteria-mineral associations within the deep sea hydrothermal vent shrimp Rimicaris exoculata.

Louise Anderson , Jean-Pierre Lechaire , Thomas Boudier , Sébastien Halary , Ghislaine Frebourg et al.

Comptes Rendus. Chimie, 2008, pp.268-280

Article dans une revue hal-00417268v1

Multiple-axis tomography: applications to basal bodies from Paramecium tetraurelia.

Cédric Messaoudi , Nicole Garreau de Loubresse , Thomas Boudier , Pascale Dupuis-Williams , Sergio Marco

Biology of the Cell, 2006, 98 (7), pp.415-25. ⟨10.1042/BC20050097⟩

Article dans une revue hal-00133088v1
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Simultaneous localization of MLL, AF4 and ENL genes in interphase nuclei by 3D-FISH: MLL translocation revisited.

Michaël Gué , Jian-Sheng Sun , Thomas Boudier

BMC Cancer, 2006, 6, pp.20. ⟨10.1186/1471-2407-6-20⟩

Article dans une revue inserm-00089199v1

A public software for energy filtering transmission electron tomography (EFTET-J): application to the study of granular inclusions in bacteria from Riftia pachyptila

Thomas Boudier , Jean-Pierre Lechaire , Ghislaine Frebourg , C. Messaoudi , C. Mory et al.

Journal of Structural Biology, 2005, 151, pp.151-159

Article dans une revue hal-00198917v1

NucleiNet: A convolutional encoder-decoder network for bio-image denoising

Zichuan Liu , Yifei Hu , Hang Xu , Lamees Nasser , Philippe Coquet et al.

2017 39th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC), Jul 2017, Seogwipo, France. pp.1986-1989, ⟨10.1109/EMBC.2017.8037240⟩

Communication dans un congrès hal-02090779v1

A dictionary-based approach to reduce noise in fluorescent microscopy images

Lamees Nasser , Paula Coronado , Etienne David , Thomas Boudier

2017 IEEE 2nd International Conference on Signal and Image Processing (ICSIP), Aug 2017, Singapore, France. pp.144-148, ⟨10.1109/SIPROCESS.2017.8124522⟩

Communication dans un congrès hal-02090787v1