Olivier Burri

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Publications associées (27)

An Open-Source Whole Slide Image Registration Workflow at Cellular Precision Using Fiji, QuPath and Elastix

Olivier Burri, Arne Seitz, Romain Guiet, Jessica Sordet, Nicolas René Chiaruttini

Image analysis workflows for Histology increasingly require the correlation and combination of measurements across several whole slide images. Indeed, for multiplexing, as well as multimodal imaging, it is indispensable that the same sample is imaged multi ...

FRONTIERS MEDIA SA2022

Miniature neurotransmission is required to maintain Drosophila synaptic structures during ageing

Olivier Burri, Evelyne Ruchti, Brian Donal McCabe, Soumya Banerjee, Samuel William Vernon, Wei Jiao

The decline of neuronal synapses is an established feature of ageing accompanied by the diminishment of neuronal function, and in the motor system at least, a reduction of behavioural capacity. Here, we have investigated Drosophila motor neuron synaptic te ...

Nature Research2021

Deep Learning Enables Individual Xenograft Cell Classification in Histological Images by Analysis of Contextual Features

Michaël Unser, Cathrin Brisken, Daniel Sage, Olivier Burri, Quentin Juppet, Fabio De Martino, Martin Weigert

Patient-Derived Xenografts (PDXs) are the preclinical models which best recapitulate inter- and intra-patient complexity of human breast malignancies, and are also emerging as useful tools to study the normal breast epithelium. However, data analysis gener ...

2021

Biotin-NeutrAvidin Mediated Immobilization of Polymer Micro- and Nanoparticles on T Lymphocytes

Harm-Anton Klok, Olivier Burri, Arne Seitz, Romain Guiet, Maxime Ayer

Cells are powerful carriers that can help to improve the delivery of nanomedicines. One approach to use cells as carriers is to immobilize the nanoparticulate cargo on the cell surface. While a plethora of chemical conjugation strategies are available to b ...

2021

Cellpose training data and scripts from "Machine learning for histological annotation and quantification of cortical layers"

Olivier Burri, Julie Meystre

This Workflow contains all the material necessary to reproduce the cells detection, thanks to the QuPath performed in the paper "Machine learning for histological annotation and quantification of cortical layers" Inside this workflow and dataset, you wi ...

Zenodo2021

T Cell-Mediated Transport of Polymer Nanoparticles across the Blood-Brain Barrier

Harm-Anton Klok, Olivier Burri, Arne Seitz, Romain Guiet, Maxime Ayer, Markus Schuster

Delivery of therapeutics to the central nervous system (CNS) is challenging due to the presence of the blood-brain barrier (BBB). Amongst various approaches that have been explored to facilitate drug delivery to the CNS, the use of cells that have the intr ...

WILEY2020

MarrowQuantAcross Aging and Aplasia: A Digital Pathology Workflow for Quantification of Bone Marrow Compartments in Histological Sections

Olaia Maria Naveiras Torres-Quiroga, Olivier Burri, Rita Sarkis, Nicolas Kunz, Vasco Ledebur de Antas de Campos, Josefine Catharina Pedersen Tratwal, Frédérica Schyrr, Chiheb Boussema, Shanti Rojas-Sutterlin, Daniel Naveed Tavakol

The bone marrow (BM) exists heterogeneously as hematopoietic/red or adipocytic/yellow marrow depending on skeletal location, age, and physiological condition. Mouse models and patients undergoing radio/chemotherapy or suffering acute BM failure endure rapi ...

2020

MarrowQuant across Aging and Aplasia: A Digital Pathology Tool for Quantification of Bone Marrow Compartments in Histological Sections

Olaia Maria Naveiras Torres-Quiroga, Olivier Burri, Rita Sarkis, Nicolas Kunz, Vasco Ledebur de Antas de Campos, Josefine Catharina Pedersen Tratwal, Frédérica Schyrr, Shanti Rojas-Sutterlin

WILEY2020

Cellular Uptake and Intracellular Trafficking of Poly(N-(2-Hydroxypropyl) Methacrylamide)

Anders Meibom, Harm-Anton Klok, Graham Knott, Stéphane Laurent Escrig, Olivier Burri, Arne Seitz, Claudia Battistella, Romain Guiet

Cellular uptake and intracellular trafficking of polymer conjugates or polymer nanoparticles is typically monitored using fluorescence-based techniques such as confocal microscopy. While these methods have provided a wealth of insight into the internalizat ...

American Chemical Society2019

Development of Sample-Adaptable Holders for Lightsheet Microscopy

Thierry Laroche, Olivier Burri, Arne Seitz, Lalit Kumar Dubey

Multi-user core microscopy facilities are often faced with the challenge to adapt or modify existing instruments. This is essential in order to fulfill the requirements of the user community, who wants to image a wide range of model organisms with varying ...

2019

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Cellpose training data and scripts from "Machine learning for histological annotation and quantification of cortical layers"

Olivier Burri, Julie Meystre

Zenodo2021

T Cell-Mediated Transport of Polymer Nanoparticles across the Blood-Brain Barrier

Harm-Anton Klok, Olivier Burri, Arne Seitz, Romain Guiet, Maxime Ayer, Markus Schuster

WILEY2020

MarrowQuantAcross Aging and Aplasia: A Digital Pathology Workflow for Quantification of Bone Marrow Compartments in Histological Sections

2020

MarrowQuant across Aging and Aplasia: A Digital Pathology Tool for Quantification of Bone Marrow Compartments in Histological Sections

Olaia Maria Naveiras Torres-Quiroga, Olivier Burri, Rita Sarkis, Nicolas Kunz, Vasco Ledebur de Antas de Campos, Josefine Catharina Pedersen Tratwal, Frédérica Schyrr, Shanti Rojas-Sutterlin

WILEY2020