ImageJ statistics

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Citations per year

Number of citations per year for the bioinformatics software tool ImageJ

Tool usage distribution map

This map represents all the scientific publications referring to ImageJ per scientific context
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Associated diseases

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ImageJ specifications


Unique identifier OMICS_13947
Name ImageJ
Software type Application/Script
Interface Command line interface, Graphical user interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java
License BSD 2-clause “Simplified” License
Computer skills Advanced
Version 2.0.0
Stability Stable
Maintained Yes




No version available



  • person_outline Kevin Eliceiri
  • person_outline Curtis Rueden
  • person_outline Wayne Rasband
  • person_outline Jeff Hardin

Publications for ImageJ


ImageJ for microscopy.

2007 Biotechniques
PMID: 17936939
DOI: 10.2144/000112517

ImageJ citations


Early Postnatal Valproic Acid Exposure Increase the Protein Level of Astrocyte Markers in Frontal Cortex of Rat

PMCID: 5953022
PMID: 29739136
DOI: 10.9758/cpn.2018.16.2.214
call_split See protocol

[…] incubated with a peroxidase-conjugated secondary antibody (1:2,500) for 2 hours at room temperature. Specific bands were detected using the ECL system and were analyzed using Image J software ( for quantification purposes. β-actin was used as a loading control and the Immunoblotting intensity was normalized withβ-actin immunoreactivity. […]


Role of Severe Acute Respiratory Syndrome Coronavirus Viroporins E, 3a, and 8a in Replication and Pathogenesis

PMCID: 5964350
DOI: 10.1128/mBio.02325-17
call_split See protocol

[…] gma) (1:200), and coverslips were mounted in ProLong Gold anti-fade reagent (Invitrogen) and examined on a Leica SP5 confocal microscope (Leica Microsystems, Inc.). Image analysis was performed using ImageJ () and the JACoP plug-in (). Three areas per image of 120 by 120 pixels with high accumulation of 3a protein were analyzed to determine Pearson’s coefficient (Pc). Pc values below 0.6 were cons […]


Wolbachia wStri Blocks Zika Virus Growth at Two Independent Stages of Viral Replication

PMCID: 5964347
DOI: 10.1128/mBio.00738-18

[…] yde for 1 h at room temperature, mounted in Prolong Gold, and stained with 4′,6-diamidino-2-phenylindole (DAPI). Virus absorption was measured based on the mean BODIPY fluorescence per cell and using ImageJ. […]


A Novel Role for Lymphotactin (XCL1) Signaling in the Nervous System: XCL1 Acts via its Receptor XCR1 to Increase Trigeminal Neuronal Excitability

PMCID: 5953414
PMID: 29588250
DOI: 10.1016/j.neuroscience.2018.03.030

[…] arl Zeiss Microscopy, USA). For semi-quantification of pp38 expression levels, the mean intensity of staining from a fixed-size region of Vc visualized at low magnification (×10) was calculated using ImageJ software and plotted as a total mean ± standard error of the mean (SEM) value calculated across a portion of Vc running from obex to 1600 μm caudal to obex (eight sections per animal at 200-μm […]


Activity of acetyltransferase toxins involved in Salmonella persister formation during macrophage infection

Nat Commun
PMCID: 5959882
PMID: 29777131
DOI: 10.1038/s41467-018-04472-6

[…] anol, dotted onto Whattman paper and exposed to a photostimulable phosphor (PSP) plate overnight. Amounts of incorporated radioactivity were then visualized using a phosphorimager and quantified with ImageJ. […]


Bacterial encapsulins as orthogonal compartments for mammalian cell engineering

Nat Commun
PMCID: 5959871
PMID: 29777103
DOI: 10.1038/s41467-018-04227-3

[…] added to protein solutions in 1× CutSmart Buffer (New England Biolabs) and incubated for 1 h at 37 °C. For densitometric determination of SDS-PAGE bands, band intensity integrals were measured using ImageJ (NIH). […]

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ImageJ institution(s)
Laboratory for Optical and Computational Instrumentation, University of Wisconsin at Madison, Madison, WI, USA; Morgridge Institute for Research, Madison, WI, USA
ImageJ funding source(s)
Supported by the National Institute of General Medical Sciences (NIGMS) through the American Recovery and Reinvestment Act of 2009 NIH Research and Research Infrastructure “Grand Opportunities” Grant, “Hardening” of Biomedical Informatics/Computing Software for Robustness and Dissemination (Ref: RC2 GM092519-01), as well as a Wellcome Trust Strategic Award (Ref: 095931); by the National Science Foundation, award number 1148362; by the Laboratory for Optical and Computational Instrumentation, and the Morgridge Institute for Research.

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