·         Photoswitching-Enabled Contrast Enhancement in Light Sheet Fluorescence Microscopy.
Vettenburg, T., Corral, A., Rodríguez-Pulido, A., Flors, C., & Ripoll, J. (2017).

ACS Photonics4(3), 424–428.

·         Optimized CUBIC protocol for 3D imaging of chicken embryos at single-cell resolution.
​Gómez-Gaviro, M. V., Balaban, E., Bocancea, D., Lorrio, M. T., Pompeiano, M., Desco, M., Ripoll, & J, Vaquero, J. J. (2017). 


·         Looking inside the heart: a see-through view of the vascular tree. Nehrhoff, I., Ripoll, J., Samaniego, R., Desco, M., & Gómez-Gaviro, M. V. (2017)

Biomedical Optics Express8(6), 3110.

·         Antigen Availability and DOCK2-Driven Motility Govern CD4+ T Cell Interactions with Dendritic Cells In Vivo
Ackerknecht, M., Gollmer, K., Germann, P., Ficht, X., Abe, J., Fukui, Y., Swoger, J., Ripoll, J., Sharpe, J. &  Stein, J. V. (2017).

The Journal of Immunology.

·         3D imaging in CUBIC-cleared mouse heart tissue: going deeper. 
Nehrhoff, I., Bocancea, D., Vaquero, J., Vaquero, J. J., Ripoll, J., Desco, M., & Gómez-Gaviro, M. V. (2016).

Biomedical Optics Express7(9), 3716.

·         Light sheet fluorescence microscopy for in situ cell interaction analysis in mouse lymph nodes.
Abe, J., Ozga, A. J., Swoger, J., Sharpe, J., Ripoll, J., & Stein, J. V. (2016).

Journal of Immunological Methods431, 1–10.

·         Stripe artifact elimination based on non-subsampled contourlet transform for light sheet fluorescence microscopy.
Liang, X., Zang, Y., Dong, D., Zhang, L., Fang, M., Yang, X., … Tian, J. (2016).

Journal of Biomedical Optics21(10), 106005.

·         pMHC affinity controls duration of CD8+ T cell–DC interactions and imprints timing of effector differentiation versus expansion.
Ozga, A. J., Moalli, F., Abe, J., Swoger, J., Sharpe, J., Zehn, D., … Stein, J. V. (2016)

Journal of Experimental Medicine213(12).

·         A Customized Light Sheet Microscope to Measure Spatio-Temporal Protein Dynamics in Small Model Organisms
M Rieckher, I Kyparissidis-Kokkinidis, A Zacharopoulos, G Kourmoulakis, N.Tavernarakis, J. Ripoll and G. Zacharakis,
Plos One 10(5): e0127869, 2015

·         Vertically scanned laser sheet microscopy
D Dong, A Arranz, S Zhu, Y Yang, L Shi, J Wang, C Shen, J Tian, J Ripoll
Journal of biomedical optics 19 (10), 106001-106001, 2014

·         Helical optical projection tomography 

Alicia Arranz, Di Dong, Shouping Zhu, Markus Rudin, Christos Tsatsanis, Jie Tian, and Jorge Ripoll (2013)

Opt. Express 21, 25912-25925