scholarly journals Encoding and decoding spatio-temporal information for super-resolution microscopy

2015 ◽  
Vol 6 (1) ◽  
Author(s):  
Luca Lanzanò ◽  
Iván Coto Hernández ◽  
Marco Castello ◽  
Enrico Gratton ◽  
Alberto Diaspro ◽  
...  
Keyword(s):  
Super Resolution ◽  
Temporal Information ◽  
Spatio Temporal ◽  
Super Resolution Microscopy

scholarly journals On the impact of competing intra- and intermolecular triplet-state quenching on photobleaching and photoswitching kinetics of organic fluorophores

2018 ◽  
Author(s):  
Jochem H. Smit ◽  
Jasper H. M. van der Velde ◽  
Jingyi Huang ◽  
Vanessa Trauschke ◽  
Sarah S. Henrikus ◽  
...  
Keyword(s):  
Triplet State ◽  
Aromatic Amino Acids ◽  
Super Resolution ◽  
Self Healing ◽  
Fluorescent Markers ◽  
Spatio Temporal ◽  
Covalently Linked ◽  
Super Resolution Microscopy ◽  
The Impact ◽  
Kinetics Of

AbstractWhile buffer cocktails remain the gold-standard for photostabilization and photoswitching of fluorescent markers, intramolecular triplet-state quenchers emerge as an alternative strategy to impart fluorophores with ‘self-healing’ or even functional properties such as photoswitching. In this contribution, we evaluated various combinations of both approaches and show that inter- and intramolecular triplet-state quenching processes compete with each other rather than being additive or even synergistic. Often intramolecular processes dominate the photophysical situation for combinations of covalently-linked and solution-based photostabilizers and photoswitching agents. In this context we identified a new function of intramolecular photostabilizers, i.e., protection of fluorophores from reversible off-switching events caused by solution-additives, which were previously misinterpreted as photobleaching. Our studies also provide practical guidance for usage of photostabilizer-dye conjugates for STORM-type super-resolution microscopy permitting the exploitation of their improved photophysics for increased spatio-temporal resolution. Finally, we provide evidence that the biochemical environment, e.g., proximity of aromatic amino-acids such as tryptophan, reduces the photostabilization efficiency of commonly used buffer cocktails. Not only have our results important implications for a deeper mechanistic understanding of self-healing dyes, but they will provide a general framework to select label positions for optimal and reproducible photostability or photoswitching kinetics.

scholarly journals DSTnet: Deformable Spatio-Temporal Convolutional Residual Network for Video Super-Resolution

Mathematics ◽  
2021 ◽  
Vol 9 (22) ◽  
pp. 2873
Author(s):  
Anusha Khan ◽  
Allah Bux Sargano ◽  
Zulfiqar Habib
Keyword(s):  
Motion Estimation ◽  
State Of The Art ◽  
Super Resolution ◽  
Spatial Relation ◽  
Temporal Information ◽  
Residual Network ◽  
Proposed Model ◽  
Art Methods ◽  
Spatio Temporal ◽  
Qualitative Performance

Video super-resolution (VSR) aims at generating high-resolution (HR) video frames with plausible and temporally consistent details using their low-resolution (LR) counterparts, and neighboring frames. The key challenge for VSR lies in the effective exploitation of intra-frame spatial relation and temporal dependency between consecutive frames. Many existing techniques utilize spatial and temporal information separately and compensate motion via alignment. These methods cannot fully exploit the spatio-temporal information that significantly affects the quality of resultant HR videos. In this work, a novel deformable spatio-temporal convolutional residual network (DSTnet) is proposed to overcome the issues of separate motion estimation and compensation methods for VSR. The proposed framework consists of 3D convolutional residual blocks decomposed into spatial and temporal (2+1) D streams. This decomposition can simultaneously utilize input video’s spatial and temporal features without a separate motion estimation and compensation module. Furthermore, the deformable convolution layers have been used in the proposed model that enhances its motion-awareness capability. Our contribution is twofold; firstly, the proposed approach can overcome the challenges in modeling complex motions by efficiently using spatio-temporal information. Secondly, the proposed model has fewer parameters to learn than state-of-the-art methods, making it a computationally lean and efficient framework for VSR. Experiments are conducted on a benchmark Vid4 dataset to evaluate the efficacy of the proposed approach. The results demonstrate that the proposed approach achieves superior quantitative and qualitative performance compared to the state-of-the-art methods.

scholarly journals Astrocyte nanoscale morphology controls Ca2+ signals at tripartite synapses

2021 ◽  
Author(s):  
Audrey Denizot ◽  
Misa Arizono ◽  
U. Valentin Nägerl ◽  
Hugues Berry ◽  
De Schutter Erik
Keyword(s):  
Neuronal Activity ◽  
Diffusion Flux ◽  
Super Resolution ◽  
Signal Propagation ◽  
Computational Tools ◽  
Complex Morphology ◽  
Recent Developments ◽  
Spatio Temporal ◽  
Cellular Compartments ◽  
Super Resolution Microscopy

AbstractCa2+ signals in astrocytes can trigger the modulation of neuronal activity. Recent developments in Ca2+ imaging and super-resolution microscopy have allowed to characterize the complex morphology of astrocyte branchlets that communicate with neurons and the associated Ca2+ microdomains. Here, we use computational tools to investigate the causal relationship between branchlet morphology and spatio-temporal profile of Ca2+ signals. 3D reticular branchlet geometries were designed, alternating between large (nodes) and thinner cellular compartments (shafts). Simulations confirm experimental observations that a decreased shaft width is associated with a decreased diffusion flux from nodes, enhancing local Ca2+ activity. Upon successive neuronal stimuli, a decreased shaft width facilitates signal propagation in astrocyte branchlets. We further identify parameters that decrease local Ca2+ activity, such as a discontinuous ER geometry and an increased Ca2+ buffering. Overall, this study proposes key parameters that regulate Ca2+ activity locally, potentially favoring neuron-astrocyte communication at tripartite synapses.

Super-Resolution Microscopy in Studying the Structure and Function of the Cell Nucleus

Acta Naturae ◽  
2017 ◽  
Vol 9 (4) ◽  
pp. 42-51
Author(s):  
S. S. Ryabichko ◽  
◽  
A. N. Ibragimov ◽  
L. A. Lebedeva ◽  
E. N. Kozlov ◽  
...  
Keyword(s):  
Cell Nucleus ◽  
Super Resolution ◽  
Structure And Function ◽  
And Function ◽  
Super Resolution Microscopy

Structural Evidence of Photoisomerization Pathways in Fluorescent Proteins

2019 ◽  
Author(s):  
Jeffrey Chang ◽  
Matthew Romei ◽  
Steven Boxer
Keyword(s):  
Rational Design ◽  
Fluorescent Protein ◽  
Fluorescent Proteins ◽  
Super Resolution ◽  
Unit Cell Size ◽  
Chlorine Substituent ◽  
Gfp Chromophore ◽  
The One ◽  
Green Fluorescent ◽  
Super Resolution Microscopy

<p>Double-bond photoisomerization in molecules such as the green fluorescent protein (GFP) chromophore can occur either via a volume-demanding one-bond-flip pathway or via a volume-conserving hula-twist pathway. Understanding the factors that determine the pathway of photoisomerization would inform the rational design of photoswitchable GFPs as improved tools for super-resolution microscopy. In this communication, we reveal the photoisomerization pathway of a photoswitchable GFP, rsEGFP2, by solving crystal structures of <i>cis</i> and <i>trans</i> rsEGFP2 containing a monochlorinated chromophore. The position of the chlorine substituent in the <i>trans</i> state breaks the symmetry of the phenolate ring of the chromophore and allows us to distinguish the two pathways. Surprisingly, we find that the pathway depends on the arrangement of protein monomers within the crystal lattice: in a looser packing, the one-bond-flip occurs, whereas in a tighter packing (7% smaller unit cell size), the hula-twist occurs.</p><p> </p><p> </p><p> </p><p> </p><p> </p><p> </p> <p> </p>

Spatio-Temporal LED Driving for Subjective Super-Resolution of Grayscale Images

2019 ◽  
pp. 1243
Author(s):  
Kojiro Matsushita ◽  
Toyotaro Tokimoto ◽  
Kengo Fujii ◽  
Hirotsugu Yamamoto
Keyword(s):  
Super Resolution ◽  
Spatio Temporal ◽  
Grayscale Images

Three Dimensional Multicolor Super-Resolution Microscopy.

2020 ◽  
Author(s):  
Adam Backer ◽  
Corey Hudson
Keyword(s):  
Three Dimensional ◽  
Super Resolution ◽  
Super Resolution Microscopy
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