scholarly journals Quantitative Analysis of Embryogenesis: A Perspective for Light Sheet Microscopy

2012 ◽  
Vol 23 (6) ◽  
pp. 1111-1120 ◽  
Author(s):  
Burkhard Höckendorf ◽  
Thomas Thumberger ◽  
Joachim Wittbrodt
Keyword(s):  
Quantitative Analysis ◽  
Light Sheet ◽  
Light Sheet Microscopy

scholarly journals Erratum: Live imaging and quantitative analysis of gastrulation in mouse embryos using light-sheet microscopy and 3D tracking tools

2014 ◽  
Vol 9 (10) ◽  
pp. 2513-2513 ◽  
Author(s):  
Takehiko Ichikawa ◽  
Kenichi Nakazato ◽  
Philipp J Keller ◽  
Hiroko Kajiura-Kobayashi ◽  
Ernst H K Stelzer ◽  
...  
Keyword(s):  
Quantitative Analysis ◽  
Light Sheet ◽  
Live Imaging ◽  
Mouse Embryos ◽  
3D Tracking ◽  
Light Sheet Microscopy

scholarly journals Scalable image processing techniques for quantitative analysis of volumetric biological images from light-sheet microscopy

2019 ◽  
Author(s):  
Justin Swaney ◽  
Lee Kamentsky ◽  
Nicholas B Evans ◽  
Katherine Xie ◽  
Young-Gyun Park ◽  
...  
Keyword(s):  
Image Processing ◽  
Quantitative Analysis ◽  
Parallel Processing ◽  
Light Sheet ◽  
Reference Image ◽  
Initial Alignment ◽  
Biological Images ◽  
Light Sheet Microscopy ◽  
Volumetric Images ◽  
Dataset Size

AbstractHere we describe an image processing pipeline for quantitative analysis of terabyte-scale volumetric images of SHIELD-processed mouse brains imaged with light-sheet microscopy. The pipeline utilizes open-source packages for destriping, stitching, and atlas alignment that are optimized for parallel processing. The destriping step removes stripe artifacts, corrects uneven illumination, and offers over 100x speed improvements compared to previously reported algorithms. The stitching module builds upon Terastitcher to create a single volumetric image quickly from individual image stacks with parallel processing enabled by default. The atlas alignment module provides an interactive web-based interface that automatically calculates an initial alignment to a reference image which can be manually refined. The atlas alignment module also provides summary statistics of fluorescence for each brain region as well as region segmentations for visualization. The expected runtime of our pipeline on a whole mouse brain hemisphere is 1-2 d depending on the available computational resources and the dataset size.

Live imaging and quantitative analysis of gastrulation in mouse embryos using light-sheet microscopy and 3D tracking tools

2014 ◽  
Vol 9 (3) ◽  
pp. 575-585 ◽  
Author(s):  
Takehiko Ichikawa ◽  
Kenichi Nakazato ◽  
Philipp J Keller ◽  
Hiroko Kajiura-Kobayashi ◽  
Ernst H K Stelzer ◽  
...  
Keyword(s):  
Quantitative Analysis ◽  
Light Sheet ◽  
Live Imaging ◽  
Mouse Embryos ◽  
3D Tracking ◽  
Light Sheet Microscopy

scholarly journals Application of light sheet microscopy for qualitative and quantitative analysis of bronchus-associated lymphoid tissue in mice

2018 ◽  
Vol 15 (10) ◽  
pp. 875-887 ◽  
Author(s):  
David Twapokera Mzinza ◽  
Henrike Fleige ◽  
Kristin Laarmann ◽  
Stefanie Willenzon ◽  
Jasmin Ristenpart ◽  
...  
Keyword(s):  
Quantitative Analysis ◽  
Lymphoid Tissue ◽  
Light Sheet ◽  
Qualitative And Quantitative Analysis ◽  
Qualitative And Quantitative ◽  
Light Sheet Microscopy

scholarly journals Achromatic terahertz Airy beam generation with dielectric metasurfaces

Nanophotonics ◽  
2020 ◽  
Vol 0 (0) ◽  
Author(s):  
Qingqing Cheng ◽  
Juncheng Wang ◽  
Ling Ma ◽  
Zhixiong Shen ◽  
Jing Zhang ◽  
...  
Keyword(s):  
Biomedical Imaging ◽  
Frequency Dispersion ◽  
Light Sheet ◽  
Photonic Devices ◽  
Self Healing ◽  
Beam Focusing ◽  
Light Sheet Microscopy ◽  
Airy Beam ◽  
Potential Applications ◽  
Airy Beams

AbstractAiry beams exhibit intriguing properties such as nonspreading, self-bending, and self-healing and have attracted considerable recent interest because of their many potential applications in photonics, such as to beam focusing, light-sheet microscopy, and biomedical imaging. However, previous approaches to generate Airy beams using photonic structures have suffered from severe chromatic problems arising from strong frequency dispersion of the scatterers. Here, we design and fabricate a metasurface composed of silicon posts for the frequency range 0.4–0.8 THz in transmission mode, and we experimentally demonstrate achromatic Airy beams exhibiting autofocusing properties. We further show numerically that a generated achromatic Airy-beam-based metalens exhibits self-healing properties that are immune to scattering by particles and that it also possesses a larger depth of focus than a traditional metalens. Our results pave the way to the realization of flat photonic devices for applications to noninvasive biomedical imaging and light-sheet microscopy, and we provide a numerical demonstration of a device protocol.

scholarly journals Single-Molecule Light-Sheet Microscopy with Local Nanopipette Delivery

2021 ◽  
Vol 93 (8) ◽  
pp. 4092-4099
Author(s):  
Bing Li ◽  
Aleks Ponjavic ◽  
Wei-Hsin Chen ◽  
Lee Hopkins ◽  
Craig Hughes ◽  
...  
Keyword(s):  
Single Molecule ◽  
Light Sheet ◽  
Light Sheet Microscopy

scholarly journals Effect of captopril on post-infarction remodelling visualized by light sheet microscopy and echocardiography

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Urmas Roostalu ◽  
Louise Thisted ◽  
Jacob Lercke Skytte ◽  
Casper Gravesen Salinas ◽  
Philip Juhl Pedersen ◽  
...  
Keyword(s):  
Morphological Changes ◽  
Light Sheet ◽  
Automated Image Analysis ◽  
Border Zone ◽  
Vascular Density ◽  
Mouse Heart ◽  
Imaging Method ◽  
Light Sheet Microscopy ◽  
Post Surgery ◽  
Captopril Treatment

AbstractAngiotensin converting enzyme inhibitors, among them captopril, improve survival following myocardial infarction (MI). The mechanisms of captopril action remain inadequately understood due to its diverse effects on multiple signalling pathways at different time periods following MI. Here we aimed to establish the role of captopril in late-stage post-MI remodelling. Left anterior descending artery (LAD) ligation or sham surgery was carried out in male C57BL/6J mice. Seven days post-surgery LAD ligated mice were allocated to daily vehicle or captopril treatment continued over four weeks. To provide comprehensive characterization of the changes in mouse heart following MI a 3D light sheet imaging method was established together with automated image analysis workflow. The combination of echocardiography and light sheet imaging enabled to assess cardiac function and the underlying morphological changes. We show that delayed captopril treatment does not affect infarct size but prevents left ventricle dilation and hypertrophy, resulting in improved ejection fraction. Quantification of lectin perfused blood vessels showed improved vascular density in the infarct border zone in captopril treated mice in comparison to vehicle dosed control mice. These results validate the applicability of combined echocardiographic and light sheet assessment of drug mode of action in preclinical cardiovascular research.

The Light-Sheet Microscopy

2021 ◽  
Author(s):  
Rolf Theodor Borlinghaus
Keyword(s):  
Light Sheet ◽  
Light Sheet Microscopy
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