OpenMIMS statistics

info info

Citations per year

Number of citations per year for the bioinformatics software tool OpenMIMS
info

Tool usage distribution map

This map represents all the scientific publications referring to OpenMIMS per scientific context
info info

Associated diseases

This word cloud represents OpenMIMS usage per disease context
info

Popular tool citations

chevron_left Morphometric analysis Image visualization Image segmentation Image data enhancement chevron_right
Want to access the full stats & trends on this tool?

Protocols

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

 (16)
library_books

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

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

[…] prove 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). […]

call_split

Toxicity of Food Grade TiO2 to Commensal Intestinal and Transient Food Borne Bacteria: New Insights Using Nano SIMS and Synchrotron UV Fluorescence Imaging

2018
Front Microbiol
PMCID: 5928251
PMID: 29740421
DOI: 10.3389/fmicb.2018.00794
call_split See protocol

[…] r between 200 and 300 cells was considered (taking into account the aggregated and dispersed TiO2 forms). The signal intensities of the different elements were extracted from image acquisitions using OpenMIMS, a FIJI plugin developed at Harvard at the National Resource for Imaging Mass Spectrometry (). […]

call_split

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

2018
Front Physiol
PMCID: 5864895
PMID: 29615919
DOI: 10.3389/fphys.2018.00214
call_split See protocol

[…] ction, 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 of 2–10 μ […]

call_split

Dissecting the Re Os molybdenite geochronometer

2017
Sci Rep
PMCID: 5700062
PMID: 29167505
DOI: 10.1038/s41598-017-16380-8
call_split See protocol

[…] er 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). […]

library_books

The dynamics of protein body formation in developing wheat grain

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

[…] quired 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 vari […]

library_books

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

2016
Sci Rep
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, and cal […]


Want to access the full list of citations?

OpenMIMS reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review OpenMIMS