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Your search keyword '"Sibarita, Jean-Baptiste"' showing total 9 results
Start Over Author "Sibarita, Jean-Baptiste" Journal nature methods
9 results on '"Sibarita, Jean-Baptiste"'

2. Automated high-speed 3D imaging of organoid cultures with multi-scale phenotypic quantification

Author

Beghin, Anne, primary, Grenci, Gianluca, additional, Sahni, Geetika, additional, Guo, Su, additional, Rajendiran, Harini, additional, Delaire, Tom, additional, Mohamad Raffi, Saburnisha Binte, additional, Blanc, Damien, additional, de Mets, Richard, additional, Ong, Hui Ting, additional, Galindo, Xareni, additional, Monet, Anais, additional, Acharya, Vidhyalakshmi, additional, Racine, Victor, additional, Levet, Florian, additional, Galland, Remi, additional, Sibarita, Jean-Baptiste, additional, and Viasnoff, Virgile, additional

Published
2022
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3. A framework for evaluating the performance of SMLM cluster analysis algorithms

Author

Nieves, Daniel J., Pike, Jeremy A., Levet, Florian, Williamson, David J., Baragilly, Mohammed, Oloketuyi, Sandra, de Marco, Ario, Griffié, Juliette, Sage, Daniel, Cohen, Edward A. K., Sibarita, Jean-Baptiste, Heilemann, Mike, and Owen, Dylan M.

Abstract

Single-molecule localization microscopy (SMLM) generates data in the form of coordinates of localized fluorophores. Cluster analysis is an attractive route for extracting biologically meaningful information from such data and has been widely applied. Despite a range of cluster analysis algorithms, there exists no consensus framework for the evaluation of their performance. Here, we use a systematic approach based on two metrics to score the success of clustering algorithms in simulated conditions mimicking experimental data. We demonstrate the framework using seven diverse analysis algorithms: DBSCAN, ToMATo, KDE, FOCAL, CAML, ClusterViSu and SR-Tesseler. Given that the best performer depended on the underlying distribution of localizations, we demonstrate an analysis pipeline based on statistical similarity measures that enables the selection of the most appropriate algorithm, and the optimized analysis parameters for real SMLM data. We propose that these standard simulated conditions, metrics and analysis pipeline become the basis for future analysis algorithm development and evaluation.

Published
2023
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4. A super-resolution platform for correlative live single-molecule imaging and STED microscopy

Author

Inavalli, V. V. G. Krishna, primary, Lenz, Martin O., additional, Butler, Corey, additional, Angibaud, Julie, additional, Compans, Benjamin, additional, Levet, Florian, additional, Tønnesen, Jan, additional, Rossier, Olivier, additional, Giannone, Gregory, additional, Thoumine, Olivier, additional, Hosy, Eric, additional, Choquet, Daniel, additional, Sibarita, Jean-Baptiste, additional, and Nägerl, U. Valentin, additional

Published
2019
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5. Publisher Correction: Super-resolution fight club: assessment of 2D and 3D single-molecule localization microscopy software

Author

Sage, Daniel, primary, Pham, Thanh-An, additional, Babcock, Hazen, additional, Lukes, Tomas, additional, Pengo, Thomas, additional, Chao, Jerry, additional, Velmurugan, Ramraj, additional, Herbert, Alex, additional, Agrawal, Anurag, additional, Colabrese, Silvia, additional, Wheeler, Ann, additional, Archetti, Anna, additional, Rieger, Bernd, additional, Ober, Raimund, additional, Hagen, Guy M., additional, Sibarita, Jean-Baptiste, additional, Ries, Jonas, additional, Henriques, Ricardo, additional, Unser, Michael, additional, and Holden, Seamus, additional

Published
2019
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6. Super-resolution fight club: assessment of 2D and 3D single-molecule localization microscopy software

Author

Sage, Daniel, primary, Pham, Thanh-An, additional, Babcock, Hazen, additional, Lukes, Tomas, additional, Pengo, Thomas, additional, Chao, Jerry, additional, Velmurugan, Ramraj, additional, Herbert, Alex, additional, Agrawal, Anurag, additional, Colabrese, Silvia, additional, Wheeler, Ann, additional, Archetti, Anna, additional, Rieger, Bernd, additional, Ober, Raimund, additional, Hagen, Guy M., additional, Sibarita, Jean-Baptiste, additional, Ries, Jonas, additional, Henriques, Ricardo, additional, Unser, Michael, additional, and Holden, Seamus, additional

Published
2019
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