OME-NGFF: a next-generation file format for expanding bioimaging data-access strategies
Moore, Josh, Allan, Chris, Besson, Sébastien, Burel, Jean-Marie, Diel, Erin, Gault, David, Kozlowski, Kevin, Lindner, Dominik, Linkert, Melissa, Manz, Trevor, Moore, Will, Pape, Constantin, Tischer, Christian, Swedlow, Jason R.
Published in Nature methods (01.12.2021)
Published in Nature methods (01.12.2021)
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Journal Article
Metadata matters: access to image data in the real world
Linkert, Melissa, Rueden, Curtis T, Allan, Chris, Burel, Jean-Marie, Moore, Will, Patterson, Andrew, Loranger, Brian, Moore, Josh, Neves, Carlos, MacDonald, Donald, Tarkowska, Aleksandra, Sticco, Caitlin, Hill, Emma, Rossner, Mike, Eliceiri, Kevin W, Swedlow, Jason R
Published in The Journal of cell biology (31.05.2010)
Published in The Journal of cell biology (31.05.2010)
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Journal Article
“Be sustainable”: EOSC‐Life recommendations for implementation of FAIR principles in life science data handling
David, Romain, Rybina, Arina, Burel, Jean‐Marie, Heriche, Jean‐Karim, Audergon, Pauline, Boiten, Jan‐Willem, Coppens, Frederik, Crockett, Sara, Exter, Katrina, Fahrner, Sven, Fratelli, Maddalena, Goble, Carole, Gormanns, Philipp, Grantner, Tobias, Grüning, Björn, Gurwitz, Kim Tamara, Hancock, John M, Harmse, Henriette, Holub, Petr, Juty, Nick, Karnbach, Geoffrey, Karoune, Emma, Keppler, Antje, Klemeier, Jessica, Lancelotti, Carla, Legras, Jean‐Luc, Lister, Allyson L, Longo, Dario Livio, Ludwig, Rebecca, Madon, Bénédicte, Massimi, Marzia, Matser, Vera, Matteoni, Rafaele, Mayrhofer, Michaela Th, Ohmann, Christian, Panagiotopoulou, Maria, Parkinson, Helen, Perseil, Isabelle, Pfander, Claudia, Pieruschka, Roland, Raess, Michael, Rauber, Andreas, Richard, Audrey S, Romano, Paolo, Rosato, Antonio, Sánchez‐Pla, Alex, Sansone, Susanna‐Assunta, Sarkans, Ugis, Serrano‐Solano, Beatriz, Tang, Jing, Tanoli, Ziaurrehman, Tedds, Jonathan, Wagener, Harald, Weise, Martin, Westerhoff, Hans V, Wittner, Rudolf, Ewbank, Jonathan, Blomberg, Niklas, Gribbon, Philip
Published in The EMBO journal (01.12.2023)
Published in The EMBO journal (01.12.2023)
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Journal Article
Fecal Supernatant from Adult with Autism Spectrum Disorder Alters Digestive Functions, Intestinal Epithelial Barrier, and Enteric Nervous System
Gonzales, Jacques, Marchix, Justine, Aymeric, Laetitia, Le Berre-Scoul, Catherine, Zoppi, Johanna, Bordron, Philippe, Burel, Marie, Davidovic, Laetitia, Richard, Jean-Romain, Gaman, Alexandru, Lejuste, Florian, Brouillet, Julie Z., Le Vacon, Françoise, Chaffron, Samuel, Leboyer, Marion, Boudin, Hélène, Neunlist, Michel
Published in Microorganisms (Basel) (13.08.2021)
Published in Microorganisms (Basel) (13.08.2021)
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Journal Article
OMERO: flexible, model-driven data management for experimental biology
Allan, Chris, Burel, Jean-Marie, Moore, Josh, Blackburn, Colin, Linkert, Melissa, Loynton, Scott, MacDonald, Donald, Moore, William J, Neves, Carlos, Patterson, Andrew, Porter, Michael, Tarkowska, Aleksandra, Loranger, Brian, Avondo, Jerome, Lagerstedt, Ingvar, Lianas, Luca, Leo, Simone, Hands, Katherine, Hay, Ron T, Patwardhan, Ardan, Best, Christoph, Kleywegt, Gerard J, Zanetti, Gianluigi, Swedlow, Jason R
Published in Nature methods (01.03.2012)
Published in Nature methods (01.03.2012)
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Journal Article
The Open Microscopy Environment (OME) Data Model and XML file: open tools for informatics and quantitative analysis in biological imaging
Goldberg, Ilya G, Allan, Chris, Burel, Jean-Marie, Creager, Doug, Falconi, Andrea, Hochheiser, Harry, Johnston, Josiah, Mellen, Jeff, Sorger, Peter K, Swedlow, Jason R
Published in Genome biology (01.01.2005)
Published in Genome biology (01.01.2005)
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Journal Article
Metadata management for high content screening in OMERO
Li, Simon, Besson, Sébastien, Blackburn, Colin, Carroll, Mark, Ferguson, Richard K., Flynn, Helen, Gillen, Kenneth, Leigh, Roger, Lindner, Dominik, Linkert, Melissa, Moore, William J., Ramalingam, Balaji, Rozbicki, Emil, Rustici, Gabriella, Tarkowska, Aleksandra, Walczysko, Petr, Williams, Eleanor, Allan, Chris, Burel, Jean-Marie, Moore, Josh, Swedlow, Jason R.
Published in Methods (San Diego, Calif.) (01.03.2016)
Published in Methods (San Diego, Calif.) (01.03.2016)
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Journal Article
Publishing and sharing multi-dimensional image data with OMERO
Burel, Jean-Marie, Besson, Sébastien, Blackburn, Colin, Carroll, Mark, Ferguson, Richard K., Flynn, Helen, Gillen, Kenneth, Leigh, Roger, Li, Simon, Lindner, Dominik, Linkert, Melissa, Moore, William J., Ramalingam, Balaji, Rozbicki, Emil, Tarkowska, Aleksandra, Walczysko, Petr, Allan, Chris, Moore, Josh, Swedlow, Jason R.
Published in Mammalian Genome (01.10.2015)
Published in Mammalian Genome (01.10.2015)
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Journal Article
Book Review
Open Tools for Storage and Management of Quantitative Image Data
Moore, Joshua, Allan, Chris, Burel, Jean‐Marie, Loranger, Brian, MacDonald, Donald, Monk, Jonathan, Swedlow, Jason R.
Published in Methods in Cell Biology (01.01.2008)
Published in Methods in Cell Biology (01.01.2008)
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Book Chapter
Journal Article
Bringing Open Data to Whole Slide Imaging
Besson, Sébastien, Leigh, Roger, Linkert, Melissa, Allan, Chris, Burel, Jean-Marie, Carroll, Mark, Gault, David, Gozim, Riad, Li, Simon, Lindner, Dominik, Moore, Josh, Moore, Will, Walczysko, Petr, Wong, Frances, Swedlow, Jason R.
Published in Digital Pathology (01.04.2019)
Published in Digital Pathology (01.04.2019)
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Book Chapter
Journal Article
On the geometry of the Gauss map of conformal foliations by lines
BUREL, JEAN-MARIE, GUDMUNDSSON, SIGMUNDUR
Published in Mathematical proceedings of the Cambridge Philosophical Society (01.01.2004)
Published in Mathematical proceedings of the Cambridge Philosophical Society (01.01.2004)
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Journal Article
OME-Zarr: a cloud-optimized bioimaging file format with international community support
Moore, Josh, Basurto-Lozada, Daniela, Besson, Sébastien, Bogovic, John, Bragantini, Jordão, Brown, Eva M., Burel, Jean-Marie, Casas Moreno, Xavier, de Medeiros, Gustavo, Diel, Erin E., Gault, David, Ghosh, Satrajit S., Gold, Ilan, Halchenko, Yaroslav O., Hartley, Matthew, Horsfall, Dave, Keller, Mark S., Kittisopikul, Mark, Kovacs, Gabor, Küpcü Yoldaş, Aybüke, Kyoda, Koji, le Tournoulx de la Villegeorges, Albane, Li, Tong, Liberali, Prisca, Lindner, Dominik, Linkert, Melissa, Lüthi, Joel, Maitin-Shepard, Jeremy, Manz, Trevor, Marconato, Luca, McCormick, Matthew, Lange, Merlin, Mohamed, Khaled, Moore, William, Norlin, Nils, Ouyang, Wei, Özdemir, Bugra, Palla, Giovanni, Pape, Constantin, Pelkmans, Lucas, Pietzsch, Tobias, Preibisch, Stephan, Prete, Martin, Rzepka, Norman, Samee, Sameeul, Schaub, Nicholas, Sidky, Hythem, Solak, Ahmet Can, Stirling, David R., Striebel, Jonathan, Tischer, Christian, Toloudis, Daniel, Virshup, Isaac, Walczysko, Petr, Watson, Alan M., Weisbart, Erin, Wong, Frances, Yamauchi, Kevin A., Bayraktar, Omer, Cimini, Beth A., Gehlenborg, Nils, Haniffa, Muzlifah, Hotaling, Nathan, Onami, Shuichi, Royer, Loic A., Saalfeld, Stephan, Stegle, Oliver, Theis, Fabian J., Swedlow, Jason R.
Published in Histochemistry and cell biology (01.09.2023)
Published in Histochemistry and cell biology (01.09.2023)
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Journal Article
OME-NGFF: scalable format strategies for interoperable bioimaging data
Moore, Josh, Allan, Chris, Besson, Sebastien, Jean-Marie Burel, Diel, Erin, Gault, David, Kozlowski, Kevin, Lindner, Dom, Linkert, Melissa, Manz, Trevor, Moore, Will, Tischer, Christian, Swedlow, Jason R
Published in bioRxiv (01.04.2021)
Published in bioRxiv (01.04.2021)
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Paper
OME Remote Objects (OMERO): a flexible, model-driven data management system for experimental biology
Allan, Chris, Burel, Jean-Marie, Moore, Josh, Blackburn, Colin, Linkert, Melissa, Loynton, Scott, MacDonald, Donald, Moore, William J., Neves, Carlos, Patterson, Andrew, Porter, Michael, Tarkowska, Aleksandra, Loranger, Brian, Avondo, Jerome, Lagerstedt, Ingvar, Lianas, Luca, Leo, Simone, Hands, Katherine, Hay, Ron T., Patwardhan, Ardan, Best, Christoph, Kleywegt, Gerard J., Zanetti, Gianluigi, Swedlow, Jason R.
Published in Nature methods (28.02.2012)
Published in Nature methods (28.02.2012)
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Journal Article
Open File Formats for High Content Analysis
Swedlow, Jason R, Rueden, Curtis, Burel, Jean‐Marie, Linkert, Melissa, Loranger, Brian, Allan, Chris, Eliceiri, Kevin W
Published in High Content Screening (04.01.2008)
Published in High Content Screening (04.01.2008)
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Book Chapter
The Open Microscopy Environment: Informatics and Quantitative Analysis for Biological Microscopy
Swedlow, J, Allan, C, Burel, J-M, Linkert, M, Loranger, B, MacDonald, D, Moore, W, Patterson, A, Rueden, C, Tarkowska, A, Goldberg, I, Eliceiri, K
Published in Microscopy and microanalysis (01.07.2009)
Published in Microscopy and microanalysis (01.07.2009)
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Journal Article
Towards a project community approach to academic scientific software development
Loynton, S., Sloan, D., Burel, J.-M., Macaulay, C.
Published in 2009 5th IEEE International Conference on E-Science Workshops (01.12.2009)
Published in 2009 5th IEEE International Conference on E-Science Workshops (01.12.2009)
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Conference Proceeding
Applications et morphismes harmoniques à valeurs dans une surface
Burel, Jean-Marie
Published in Comptes rendus de l'Académie des sciences. Série I. Mathématique (01.03.2001)
Published in Comptes rendus de l'Académie des sciences. Série I. Mathématique (01.03.2001)
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Journal Article