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OpenMIMS specifications

Information


Unique identifier OMICS_25923
Name OpenMIMS
Alternative name Open Multi-isotope Imaging Mass Spectrometry
Software type Package/Module, Toolkit/Suite
Interface Graphical user interface
Restrictions to use None
Operating system Windows
Programming languages Java
Computer skills Medium
Stability Stable
Requirements
ImageJ
Maintained Yes

Versioning


No version available

Additional information


http://nrims.harvard.edu/files/nrims/files/openmims-manual.pdf

OpenMIMS citations

 (15)
library_books

The stage of seed development influences iron bioavailability in pea (Pisum sativum L.)

2018
PMCID: 5932076
PMID: 29720667
DOI: 10.1038/s41598-018-25130-3

[…] the counting statistics. the number of images acquired was varied to give the same total dose for each region depending on the beam current. image processing was conducted with imagej using the openmims plugin (harvard)., garden peas were microwaved following the cooking instruction on the pack. in brief, 100 g frozen garden peas were placed in a beaker with 1 tablespoon (9.5 ml) milliq […]

library_books

Using Aiptasia as a Model to Study Metabolic Interactions in Cnidarian Symbiodinium Symbioses

2018
PMCID: 5864895
PMID: 29615919
DOI: 10.3389/fphys.2018.00214

[…] the 13c/12c or 15n/14n maps were expressed as a hue-saturation-intensity image (hsi), where the color scale represents the isotope ratio. image processing was performed using the imagej plugin openmims (national resource for imaging mass spectrometry, https://github.com/bwhcni/openmims/wiki)., enrichment of the isotope labels was quantified for 20 regions of interest (rois) (circles […]

library_books

Dissecting the Re Os molybdenite geochronometer

2017
PMCID: 5700062
PMID: 29167505
DOI: 10.1038/s41598-017-16380-8

[…] size of 45 or 50 μm2, at a resolution of 512 × 512 pixels, with a dwell times of 25 or 30 ms/pixel. maps were corrected for 44 ns deadtime on each individual pixel. images were processed using the openmims plugin for fiji/imagej (https://github.com/bwhcni/openmims)., , electronic supplementary material , supplementary information accompanies this paper at 10.1038/s41598-017-16380-8., […]

library_books

The dynamics of protein body formation in developing wheat grain

2016
PMCID: 4988504
PMID: 26898533
DOI: 10.1111/pbi.12549

[…] with an image dwell time of 20 ms, while images of the 15n‐labelled samples were acquired with a dwell time of 30 ms and at an image size of 50 ×× 50 μm and 256 by 256 pixels. image j with the openmims plugin (harvard, cambridge, ma, usa) was used to generate isotope ratio images and extract quantitative data. hue saturation intensity (his) colour maps were used to display the isotopic […]

library_books

Characterization of polymeric nanoparticles for treatment of partial injury to the central nervous system

2016
PMCID: 5540673
PMID: 28795116
DOI: 10.1016/j.dib.2016.02.019

[…] microscopy, characterization and analysis, the university of western australia, a facility funded by the university, state and commonwealth governments. this work was made possible in part by the openmims software whose development is funded by the nih/nibib national resource for imaging mass spectrometry, nih/nibib 5p41 eb001974-10., supplementary data associated with this article […]

library_books

Impact of high CO2 on the geochemistry of the coralline algae Lithothamnion glaciale

2016
PMCID: 4744931
PMID: 26853562
DOI: 10.1038/srep20572

[…] view were acquired using a 1.3 pa beam (with a nominal probe diameter of approximately 300 nm), at a pixel resolution of 256 × 256, with a count time of 100 ms/pixel. images were processed using the openmims plugin for imagej, utilising the hue-saturation-intensity scale to display the ratio on a colour scale. ratios were extracted from images by drawing regions of interest on the images, […]


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