sample of publications

• articles 

  • Development and testing of a sedation protocol for Neocaridina davidi.  Scientific Reports.  14:1-14. 2024
  • Single plane illumination microscopy for microfluidic device imaging.  Biosensors-Basel.  12:1-13. 2022
  • Non-invasive visualization of amyloid-beta deposits in Alzheimer amyloidosis mice using magnetic resonance imaging and fluorescence molecular tomography.  Biomedical Optics Express.  13:3809-3822. 2022
  • Recent advances in optical tomography in low scattering media.  OPTICS AND LASERS IN ENGINEERING.  135:1-15. 2020
  • Qualitative disorder measurements from backscattering spectra through an optical fiber.  Biomedical Optics Express.  11:6038-6048. 2020
  • Biomedical applications of tissue clearing and three-dimensional imaging in health and disease.  iScience.  23:1-30. 2020
  • Development of an Inverted Epifluorescence Microscope for Long-Term Monitoring of Bacteria in Multiplexed Microfluidic Devices.  SENSORS.  20:1-14. 2020
  • Multimodal imaging combining time-domain near-infrared optical tomography and continuous-wave fluorescence molecular tomography.  OPTICS EXPRESS.  28:9860-9874. 2020
  • Smart Toolkit for Fluorescence Tomography: Simulation, Reconstruction, and Validation.  IEEE TRANSACTIONS ON BIOMEDICAL ENGINEERING.  67:16-26. 2019
  • Applications of light-sheet microscopy in microdevices.  Frontiers in Neuroanatomy.  13:1-15. 2019
  • Mutations in Bcl9 and Pygo genes cause congenital heart defects by tissue-specific perturbation of Wnt/beta-catenin signaling.  GENES & DEVELOPMENT.  32:1443-1458. 2018
  • Optical projection tomography via phase retrieval algorithms.  METHODS.  136:81-89. 2018
  • Demonstrating Improved Multiple Transport-Mean-Free-Path Imaging Capabilities of Light Sheet Microscopy in the Quantification of Fluorescence Dynamics.  Biotechnology Journal.  13. 2018
  • Phase-Retrieved Tomography enables Mesoscopic imaging of Opaque Tumor Spheroids.  Scientific Reports.  7:1-10. 2017
  • Antigen Availability and DOCK2-Driven Motility Govern CD4(+) T Cell Interactions with Dendritic Cells In Vivo.  JOURNAL OF IMMUNOLOGY.  199:520-530. 2017
  • Looking inside the heart: a see-through view of the vascular tree.  Biomedical Optics Express.  8:3110-3118. 2017
  • Optimized CUBIC protocol for three-dimensional imaging of chicken embryos at single-cell resolution.  DEVELOPMENT.  144:2092-2097. 2017
  • Fluorescence Diffusion in the Presence of Optically Clear Tissues in a Mouse Head Model.  IEEE TRANSACTIONS ON MEDICAL IMAGING.  36:1086-1093. 2017
  • Photoswitching-Enabled Contrast Enhancement in Light Sheet Fluorescence Microscopy .  ACS Photonics.  4:424-428. 2017
  • pMHC affinity controls duration of CD8+ T cell-DC interactions and imprints timing of effector differentiation versus expansion.  JOURNAL OF EXPERIMENTAL MEDICINE.  213. 2016
  • Stripe artifact elimination based on nonsubsampled contourlet transform for light sheet fluorescence microscopy.  JOURNAL OF BIOMEDICAL OPTICS.  21. 2016
  • 3D imaging in CUBIC-cleared mouse heart tissue: going deeper.  Biomedical Optics Express.  7. 2016
  • Uniqueness in multispectral constant-wave epi-illumination imaging.  OPTICS LETTERS.  41:3098-3101. 2016
  • Dynamic Measurement of Tumor Vascular Permeability and Perfusion using a Hybrid System for Simultaneous Magnetic Resonance and Fluorescence Imaging.  MOLECULAR IMAGING AND BIOLOGY.  18:191-200. 2016
  • Light sheet fluorescence microscopy for in situ cell interaction analysis in mouse lymph nodes.  JOURNAL OF IMMUNOLOGICAL METHODS.  431:1-10. 2016
  • Quantitative performance characterization of three-dimensional noncontact fluorescence molecular tomography.  JOURNAL OF BIOMEDICAL OPTICS.  21. 2016
  • Polarization-sensitive optical projection tomography for muscle fiber imaging.  Scientific Reports.  6 (19241):1-8. 2016
  • Unleashing Optics and Optoacoustics for Developmental Biology.  TRENDS IN BIOTECHNOLOGY.  33:679-691. 2015
  • Advances in optical imaging for pharmacological studies.  Frontiers in Pharmacology.  6:1-7. 2015
  • A Customized Light Sheet Microscope to Measure Spatio-Temporal Protein Dynamics in Small Model Organisms.  PLoS One.  10:1-15. 2015
  • In-vivo Optical Tomography of Small Scattering Specimens: time-lapse 3D imaging of the head eversion process in Drosophila melanogaster.  Scientific Reports.  4. 2014
  • Vertically scanned laser sheet microscopy.  JOURNAL OF BIOMEDICAL OPTICS.  19:1-8. 2014
  • Plenoptic projection fluorescence tomography.  OPTICS EXPRESS.  22:23215-23225. 2014
  • Steady-state total diffuse reflectance with an exponential decaying source.  OPTICS LETTERS.  39:3919-3922. 2014
  • Helical optical projection tomography.  OPTICS EXPRESS.  21:25912-25925. 2013
  • Light transport in turbid media with non-scattering, low-scattering and high absorption heterogeneities based on hybrid simplified spherical harmonics with radiosity model.  Biomedical Optics Express.  4:2209-2223. 2013
  • Feasibility study of endoscopic x-ray luminescence computed tomography: Simulation demonstration and phantom application.  JOURNAL OF APPLIED PHYSICS.  114:1-5. 2013
  • Use of Split Bregman denoising for iterative reconstruction in fluorescence diffuse optical tomography.  JOURNAL OF BIOMEDICAL OPTICS.  18. 2013
  • Longitudinal in vivo imaging of bone formation and resorption using fluorescence molecular tomography.  BONE.  52:587-595. 2013
  • Development of a three-dimensional surface imaging system for melanocytic skin lesion evaluation.  JOURNAL OF BIOMEDICAL OPTICS.  18:1-13. 2013
  • Influence of absorption and scattering on the quantification of fluorescence diffuse optical tomography using normalized data.  JOURNAL OF BIOMEDICAL OPTICS.  17:1-9. 2012
  • Fluorescence diffuse optical tomography using the split Bregman method.  MEDICAL PHYSICS.  38:6275-6284. 2011
  • Feasibility of U-curve method to select the regularization parameter for fluorescence diffuse optical tomography in phantom and small animal studies.  OPTICS EXPRESS.  19:11490-11506. 2011

• book chapters 

  • Optical Properties of Tissues in the Near Infrared: Their Relevance for Optical Bioimaging. In: Near Infrared-Emitting Nanoparticles for Biomedical Applications.  SPRINGER. 1-20. 2020

• conference contributions 

  • Assessing Light Sheet Microscopy in Semi-Transparent Media with a Dedicated Monte Carlo Simulator 2020
  • Disorder measurements from backscattering spectra through an optical fiber 2020
  • Fast light sheet microscopy for in-vivo imaging 2020
  • Setup and implementation of an imaging chamber for 3D in-vivo monitoring of dwarf shrimp Neocardina davidi 2020
  • Simultaneous acquisition of a dual camera setup for 3D behavioral studies in Neocardinia davidi 2020
  • Algebraic Reconstruction Technique for Experimental Phase Retrieval 2019
  • Monte Carlo Light Sheet Fluorescence Microscopy Simulator for New Optical Windows Assesment 2019
  • 3D imaging of transparent brain with single/selective plane illumination microscopy 2018
  • 3D imaging of transparent brain with single/selective plane illumination microscopy 2018
  • LOCKING IN ON LARGE VOLUME LIGHT-SHEET MICROSCOPY.  84-84. 2018
  • 3D imaging of the cleared intact murine colon with light sheet microscopy 2016
  • Diffuse Light at Surfaces: Tips, Tricks and Applications 2016
  • Dynamic Focusing in the Zebrafish Heart 2016
  • The role of cerebral spinal fluid in light propagation through the mouse head: improving fluorescence tomography with Monte Carlo modeling 2016
  • Coherent noise remover for optical projection tomography 2015
  • Fluorescence multi-scale endoscopy and its applications in the study and diagnosis of gastro-intestinal diseases: set-up design and software implementation 2015
  • High resolution 3D microscopy of development neurogenesis in chick embryo models.  495-498. 2015
  • Light propagation through weakly scattering media: a study of Monte Carlo vs. diffusion theory with application to neuroimaging 2015
  • Optical projection tomography and light sheet microscopy for imaging in biological specimens a comparison study.  211-215. 2014
  • Simulations, Testing and Results for the Pixelation of LYSO Crystals for Gamma Detectors Using SSLE Techniques 2014
  • Split Bregman-singular value analysis approach to solve the compressed sensing problem of fluorescence diffuse optical tomography.  415-418. 2014
  • Analysis of the rotational center location method in Optical Projection Tomography.  3008-3011. 2013
  • Employing in-vivo molecular imaging in simulating and validating tumor growth.  5533-5536. 2013
  • La naturaleza microscópica en 3D 2013
  • ART with Split Bregman Denoising: A Reconstruction Method for Fluorescence Diffuse Optical Tomography 2011