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First author publications
[1] Valades-Cruz, C. A.*, Barth, R.*, Abdellah, M.*, Shaban, H. A. Genome-wide analysis of the biophysical properties of chromatin and nuclear proteins in living cells with Hi-D. Nature Protocols (2024).
[2] Prigent, S.*, Valades-Cruz, C. A.*, Leconte, L.*, Maury, L., Salamero, J., Kervrann, C. BioImageIT: Open-source framework for integration of image data-management with analysis. Nature Methods (2022).
[3] Vaz Rimoli, C.*, Valades-Cruz, C. A.*, Curcio, V., Mavrakis, M., Brasselet, S. 4polar-STORM polarized super-resolution imaging of actin filament organization in cells. Nature Communications (2022).
[4] Shaban H*, Valades-Cruz CA* , Savatier J, Brasselet S. Polarized super-resolution structural imaging inside amyloid fibrils using Thioflavine T. Scientific Reports (2017).
[5] Valades-Cruz CA*, Shaban H* , Kress A, Bertaux N, Monneret S, Mavrakis M, Savatier J, Brasselet S. Quantitative nanoscale imaging of orientational order in biological filaments by polarized superresolution microscopy. PNAS (2016).
Corresponding author publications
[1] Prigent S, Valades-Cruz CA, Leconte L, Salamero J, Kervrann C. STracking: a free and open-source Python library for particle tracking and analysis. Bioinformatics (2022).
Other publications
[1] Lemaigre, C., Ceuppens, A., Valades-Cruz, C.A., Ledoux, B., Vanbeneden, B., Hassan, M., Zetterberg, F.R., Nilsson, U.J., Johannes, L., Wunder, C., Renard, H.-F. and Morsomme, P. N-BAR and F-BAR proteins – Endophilin-A3 and PSTPIP1 – control clathrin-independent endocytosis of L1CAM. Traffic. (2023)
[2] Prigent, S., Nguyen, H-N., Leconte, L., Valades-Cruz, C. A., Hajj, B., Salamero, J., Kervrann, C. SPITFIR(e): a supermaneuverable algorithm for fast denoising and deconvolution of 3D fluorescence microscopy images and videos. Scientific Reports (2023)
[3] Forrester A, Rathjen S, Garcia-Castillo MD, Bachert C, Couhert A, Tepshi L, Pichard S, Martinez J, Munier M, Sierocki R, Renard HF, Valades-Cruz CA, Dingli F, Loew D, Lamaze C, Cintrat JC, Linstedt A, Gillet D, Barbier J, Johannes L. Functional Dissection of the Retrograde Shiga Toxin Trafficking Inhibitor Retro-2. Nature Chemical Biology (2020).
[4] Renard, H-F, Tyckaert, F., Lo Giudice, C., Hirsch, T., Valades-Cruz, C. A., Lemaigre, C., Shafaq-Zadah, M., Wunder, C., Wattiez, R., Johannes, L., van der Bruggen, P., Alsteens, D., Morsomme, P. Endophilin-A3 and Galectin-8 control the clathrin-independent endocytosis of CD166. Nature Communications (2020).
[5] Briane V, Vimond M, Valades-Cruz CA, Salomon A, Wunder C, Kervrann C. A sequential algorithm to detect diffusion switching along intracellular particle trajectories. Bioinformatics (2020).
[6] Torrino S, Shen W, Blouin C, Kailasam Mani S., Viaris de Lesegno C, Bost P, Grassard A, Köster D, Valades-Cruz CA, Chambon V, Johannes L, Pierobon P, Soumelis V, Coirault C, Vassilopoulos S, Lamaze C. EHD2 is a mechanotransducer connecting caveolae dynamics with gene transcription. J Cell Biol. (2018).
[7] Banerjee A, Grazon C, Pons T, Bhatia D, Valades-Cruz CA, Johannes L, Krishnan Y, Dubertret B. A Novel Type of Quantum Dot–Transferrin Conjugate Using DNA Hybridization Mimics Intracellular Recycling of Endogenous Transferrin. Nanoscale (2018).
Reviews, Perspective & Comments
[1] Valades-Cruz CA*, Leconte L*, Fouche G*, Blanc T*, Van Hille N*, Fournier K, Laurent T, Gallean B, Deslandes F, Hajj B, Faure E, Argelaguet F, Trubuil A, Isenberg T, Masson J-B, Salamero J, Kervrann C Challenges of intracellular visualization using virtual and augmented reality. Frontiers in Bioinformatics (2022).
[2] Johannes L, Valades-Cruz CA The final twist in endocytic membrane scission. Nature Cell Biology (2021).
Proceedings
[1] Salomon A., Valades-Cruz C. A., Leconte L., Kervrann C. Dense Mapping of Intracellular Diffusion and Drift from Single-Particle Tracking Data Analysis, ICASSP 2020 - 2020 IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP), Barcelona, Spain, 2020, pp. 966-970.
Preprints and submitted papers
[1] Papereux S.*, Leconte L.*, Valades-Cruz C. A.*, Liu T., Dumont J., Chen Z., Salamero J., Kervrann C., Badoual A. DeepCristae, a CNN for the restoration of mitochondria cristae in live microscopy images. bioRxiv (2023)
[2] MacDonald E., Forrester A., Valades-Cruz C. A., Madsen T. D., Hetmanski J., Dransart E., Ng Y., Godbole R., Shp A. A., Leconte L., Chambon V., Ghosh D., Pinet A., Bhatia D. D., Lombard B., Loew D., Larsen M. R., Leffler H., Lefeber D., Clausen H., Caswell P. T., Shafaq-Zadah M., Mayor S., Weigert R., Wunder C., Johannes L. Growth factor-induced desialylation for the fast control of endocytosis. bioRxiv (2023)
[3] Shafaq-Zadah M., Dransart E., Wunder C., Chambon V., Valades-Cruz C. A., Leconte L., Sarangi N. K., Robinson J., Bai S-K., Regmi R., Di Cicco A., Hovasse A., Bartels R., Nilsson U.J., Cianférani-Sanglier S., Leffler H., Keyes T. E., Lévy D., Raunser S., Roderer D., Johannes L. Spatial N-glycan rearrangement on α5β1 integrin nucleates galectin-3 oligomers to determine endocytic fate. bioRxiv (2023)
