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Publications
NeuroNex Funded
Adaptive Compressed Sensing MRI with Unsupervised Learning
arXiv
There are two fundamental problems in compressed sensing MRI: (1) where to sample and (2) how to reconstruct. In this paper, we tackle both problems simultaneously, using a novel unsupervised, end-to-end learning framework, called LOUPE.
Unsupervised Deep Learning for Bayesian Brain MRI Segmentation
arXiv
Probabilistic atlas priors have been commonly used to derive adaptive and robust brain MRI segmentation algorithms. Widely-used neuroimage analysis pipelines rely heavily on these techniques, which are often computationally expensive.
Unsupervised Learning of Probabilistic Diffeomorphic Registration for Images and Surfaces
arXiv
In this paper, we present a probabilistic generative model and derive an unsupervised learning-based inference algorithm that uses insights from classical registration methods and makes use of recent developments in convolutional neural networks.
Restoring Function After Severe Spinal Cord Injury Through Bioluminescence-Driven Optogenetics
DOI: 10.1101/710194
The ability to manipulate specific neuronal populations of the spinal cord following spinal cord injury (SCI) could prove highly beneficial for rehabilitation in patients through maintaining and strengthening still existing neuronal connections and/or facilitating the formation of new connections.
The BioLuminescent-OptoGenetic in vivo Response to Coelenterazine is Proportional, Sensitive and Specific in Neocortex
DOI: 10.1101/709931
BioLuminescent (BL) light production can modulate neural activity and behavior through co-expressed OptoGenetic (OG) elements, an approach termed "BL-OG". Yet, the relationship between BL-OG effects and bioluminescent photon emission has not been characterized in vivo.
Aequorea victoria’s secrets
DOI: 10.1101/677344
Using mRNA-Seq and de novo transcriptome assembly, we identified, cloned and characterized nine previously undiscovered fluorescent protein (FP) homologs from Aequorea victoria and a related Aequorea species, with most sequences highly divergent from avGFP.
GCaMP6 ΔF/F dependence on the excitation wavelength in 3-photon and 2-photon microscopy of mouse brain activity
Biomedical Optics Express
DOI: 10.1364/boe.10.003343
A fundamental challenge in calcium imaging is to minimize the excitation laser power while still maintaining a sufficient signal-to-noise ratio to distinguish individual transients in the fluorescence traces.
Learning-based Optimization of the Under-sampling Pattern in MRI
arXiv
Acquisition of Magnetic Resonance Imaging (MRI) scans can be accelerated by under-sampling in k-space (i.e., the Fourier domain). In this paper, we consider the problem of optimizing the sub-sampling pattern in a data-driven fashion.
Fluorescent coherent diffractive imaging with accelerating light sheets
Optics Express
We recently introduced coherent holographic image reconstruction by phase transfer (CHIRPT), a single-pixel imaging method that significantly improves the depth of field in fluorescence microscopy and enables holographic refocusing of fluorescent light.