11. Publications & bibliography

Con05

Edwin G. Conklin. Mosaic development in ascidian eggs. Journal of Experimental Zoology, 2(2):145–223, 1905. URL: https://onlinelibrary.wiley.com/doi/abs/10.1002/jez.1400020202, arXiv:https://onlinelibrary.wiley.com/doi/pdf/10.1002/jez.1400020202, doi:10.1002/jez.1400020202.

Con5.

Edwin Grant Conklin. The organization and cell-lineage of the ascidian egg / by Edwin G. Conklin. Philadelphia :[Academy of Natural Sciences],, 1905. URL: http://www.biodiversitylibrary.org/item/24005.

FDM+10

R. Fernandez, Pradeep Das, V. Mirabet, E. Moscardi, Jan Traas, J.-L. Verdeil, Grégoire Malandain, and Christophe Godin. Imaging plant growth in 4D: robust tissue reconstruction and lineaging at cell resolution. Nature Methods, 7:547–553, 2010. URL: https://hal.archives-ouvertes.fr/hal-00521491.

Gui15

Léo Guignard. Quantitative analysis of animal morphogenesis: from high-throughput laser imaging to 4D virtual embryo in ascidians. Theses, Université Montpellier, December 2015. URL: https://tel.archives-ouvertes.fr/tel-01278725.

GFL+18

Léo Guignard, Ulla-Maj Fiuza, Bruno Leggio, Emmanuel Faure, Julien Laussu, Lars Hufnagel, Grégoire Malandain, Christophe Godin, and Patrick Lemaire. Contact-dependent cell-cell communications drive morphological invariance during ascidian embryogenesis. working paper or preprint, November 2018. URL: https://hal.archives-ouvertes.fr/hal-01938126, doi:10.1101/238741.

GFL+20

Léo Guignard, Ulla-Maj Fiuza, Bruno Leggio, Julien Laussu, Emmanuel Faure, Gaël Michelin, Kilian Biasuz, Lars Hufnagel, Grégoire Malandain, Christophe Godin, and Patrick Lemaire. Contact area-dependent cell communication and the morphological invariance of ascidian embryogenesis. Science, July 2020. URL: https://hal.inria.fr/hal-02903409, doi:10.1126/science.aar5663.

JBG+25

Haydar Jammoul, Kilian Biasuz, Benjamin Gallean, Patrick Lemaire, and Grégoire Malandain. Developmental stereotypy assessment in ascidian embryos. In ISBI 2025 - IEEE International Symposium on Biomedical Imaging. Houston, TX, United States, April 2025. URL: https://inria.hal.science/hal-05023375.

LLC+19

Bruno Leggio, Julien Laussu, Axel Carlier, Christophe Godin, Patrick Lemaire, and Emmanuel Faure. MorphoNet: an interactive online morphological browser to explore complex multi-scale data. Nature Communications, 10(2812):1–8, 2019. URL: https://hal.science/hal-01938153, doi:10.1038/s41467-019-10668-1.

MarquezNBA14

P. Màrquez-Neila, L. Baumela, and L. Alvarez. A morphological approach to curvature-based evolution of curves and surfaces. IEEE Transactions on Pattern Analysis and Machine Intelligence, 36(1):2–17, Jan 2014. doi:10.1109/TPAMI.2013.106.

ML24

Grégoire Malandain and Patrick Lemaire. Detecting symmetry in ascidian embryo. In ISBI 2024 - 21th International Symposium on Biomedical Imaging, 4. Athenes, Greece, May 2024. URL: https://inria.hal.science/hal-04609482.

ML25

Grégoire Malandain and Patrick Lemaire. Surface preserving resampling of labeled images. In ISBI proceedings, 2025 IEEE 22nd International Symposium on Biomedical Imaging (ISBI), 1–4. Houston, United States, April 2025. IEEE. URL: https://hal.science/hal-05065550, doi:10.1109/ISBI60581.2025.10980702.

Mic16

Gaël Michelin. Image analysis tools and inter-individual registration for the study of animal and plant morphogenesis. Theses, Université Côte d'Azur, October 2016. URL: https://tel.archives-ouvertes.fr/tel-01451608.

MGF+15

Gaël Michelin, Léo Guignard, Ulla-Maj Fiuza, Patrick Lemaire, Christophe Godin, and Grégoire Malandain. Cell Pairings for Ascidian Embryo Registration. In ISBI - International Symposium on Biomedical Imaging, The 2015 IEEE International Symposium on Biomedical Imaging proceedings. New York, United States, April 2015. Institute of Electrical and Electronics Engineers (IEEE). USA., The Printing House, Inc. URL: https://inria.hal.science/hal-01113166, doi:10.1109/ISBI.2015.7163872.

MGFM14

Gaël Michelin, Léo Guignard, Ulla-Maj Fiuza, and Grégoire Malandain. Embryo Cell Membranes Reconstruction by Tensor Voting. In ISBI - International Symposium on Biomedical Imaging. Beijing, China, April 2014. IEEE. URL: https://hal.inria.fr/hal-00915000, doi:10.1109/ISBI.2014.6868105.

Ots79

Nobuyuki Otsu. A threshold selection method from gray-level histograms. IEEE Trans. Sys., Man., Cyber., 9(1):62–66, 1979. doi:10.1109/TSMC.1979.4310076.