136 research outputs found
Deep-STORM: super-resolution single-molecule microscopy by deep learning
We present an ultra-fast, precise, parameter-free method, which we term
Deep-STORM, for obtaining super-resolution images from stochastically-blinking
emitters, such as fluorescent molecules used for localization microscopy.
Deep-STORM uses a deep convolutional neural network that can be trained on
simulated data or experimental measurements, both of which are demonstrated.
The method achieves state-of-the-art resolution under challenging
signal-to-noise conditions and high emitter densities, and is significantly
faster than existing approaches. Additionally, no prior information on the
shape of the underlying structure is required, making the method applicable to
any blinking data-set. We validate our approach by super-resolution image
reconstruction of simulated and experimentally obtained data.Comment: 7 pages, added code download reference and DOI for the journal
versio
DeepSTORM3D: dense three dimensional localization microscopy and point spread function design by deep learning
Localization microscopy is an imaging technique in which the positions of
individual nanoscale point emitters (e.g. fluorescent molecules) are determined
at high precision from their images. This is the key ingredient in
single/multiple-particle-tracking and several super-resolution microscopy
approaches. Localization in three-dimensions (3D) can be performed by modifying
the image that a point-source creates on the camera, namely, the point-spread
function (PSF). The PSF is engineered using additional optical elements to vary
distinctively with the depth of the point-source. However, localizing multiple
adjacent emitters in 3D poses a significant algorithmic challenge, due to the
lateral overlap of their PSFs. Here, we train a neural network to receive an
image containing densely overlapping PSFs of multiple emitters over a large
axial range and output a list of their 3D positions. Furthermore, we then use
the network to design the optimal PSF for the multi-emitter case. We
demonstrate our approach numerically as well as experimentally by 3D STORM
imaging of mitochondria, and volumetric imaging of dozens of
fluorescently-labeled telomeres occupying a mammalian nucleus in a single
snapshot.Comment: main text: 9 pages, 5 figures, supplementary information: 29 pages,
20 figure
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