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Iterative Deconvolve 3D specifications

Information


Unique identifier OMICS_25616
Name Iterative Deconvolve 3D
Alternative name DAMAS3
Software type Application/Script
Interface Graphical user interface
Restrictions to use None
Input data Some image, single-slice PSF and a multiple-slice image stack.
Operating system Windows
Programming languages Java
Computer skills Medium
Stability Stable
Source code URL http://www.optinav.info/download/Iterative_Deconvolve_3D.java
Maintained Yes

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Additional information


https://imagej.net/Iterative_Deconvolve_3D

Publication for Iterative Deconvolve 3D

Iterative Deconvolve 3D citations

 (22)
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Levetiracetam Affects Differentially Presynaptic Proteins in Rat Cerebral Cortex

2017
PMCID: 5732259
PMID: 29311825
DOI: 10.3389/fncel.2017.00389
call_split See protocol

[…] ames/image were averaged. Quantitative analysis was performed in ∼1000 randomly selected subfields measuring about 25 μm × 25 μm from the 512 pixels × 512 pixels images. Images were deconvolved using Iterative Deconvolve 3D plugin of ImageJ software (v. 1.48, NIH) with the same parameters for all images of both LEV-treated and control group; number and size of puncta were measured with the functio […]

library_books

Persistent microglial activation and synaptic loss with behavioral abnormalities in mouse offspring exposed to CASPR2 antibodies in utero

2017
Acta Neuropathol
PMCID: 5587616
PMID: 28755208
DOI: 10.1007/s00401-017-1751-5

[…] To process images for quantification of synaptic profiles, first z-stacks were deconvolved using the WPL deconvolution algorithm in the Parallel Iterative Deconvolution ImageJ plugin [] based on the Iterative Deconvolve 3D algorithm [] utilizing a theoretical 3D point spread function generated in PSF Lab []. Image stacks were then filtered with a 3 × 3 median filter and thresholded using the OTSU […]

library_books

Abnormally Increased Secretion in Olfactory Neuronal Precursors from a Case of Schizophrenia Is Modulated by Melatonin: A Pilot Study

2017
Int J Mol Sci
PMCID: 5535930
PMID: 28703738
DOI: 10.3390/ijms18071439

[…] ges were deconvoluted with a theoretical PSF (point spread focal). All image analysis was done with the ImageJ software (version 1.51j8, U.S. National Institutes of Health, Bethesda, MD, USA) and the Iterative Deconvolve 3D plugin (DAMAS3, version 5.2, Bellevue, WA, USA). The PSF was generated with the Diffraction PSF 3D plugin (version 2.0, Bellevue, WA, USA). Images were then converted to 8 bits […]

library_books

Transaldolase inhibition impairs mitochondrial respiration and induces a starvation like longevity response in Caenorhabditis elegans

2017
PLoS Genet
PMCID: 5389855
PMID: 28355222
DOI: 10.1371/journal.pgen.1006695

[…] image were maximized without over-saturation to emphasize mitochondrial content regardless of GFP expression, import, and folding levels. For imaging processing, Z-stacks were deconvoluted using the Iterative Deconvolve 3D plugin in Fiji and 5 image slices were projected using max intensity projection. Mitochondrial content was analyzed by thresholding the 5 image slice projections of different a […]

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Microvasculature on a chip: study of the Endothelial Surface Layer and the flow structure of Red Blood Cells

2017
Sci Rep
PMCID: 5364477
PMID: 28338083
DOI: 10.1038/srep45036
call_split See protocol

[…] f known diameter (500 nm) and ensuring that the bead size measured from the deconvolved images agreed with the expected one. PSF deconvolution was then performed on image stacks of the ESL using the “Iterative deconvolve 3D” plugin, after which ESL thickness measurements were performed as described in the text.For topography analysis, the above stacks were processed with an edge-detection filter, […]

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Epilepsy and intellectual disability linked protein Shrm4 interaction with GABABRs shapes inhibitory neurotransmission

2017
Nat Commun
PMCID: 5343488
PMID: 28262662
DOI: 10.1038/ncomms14536
call_split See protocol

[…] king solution and washed with PBS. Sections have been mounted on coated super-adhesive glass slides and covered with Mowiol prior to confocal imaging. Images have been deconvoluted with ImageJ plugin Iterative Deconvolve 3D. […]

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