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JACoP specifications


Unique identifier OMICS_18875
Name JACoP
Alternative name Just Another Colocalization Plugin
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Java
Computer skills Medium
Version 2.0
Stability Stable
Maintained Yes


No version available


  • person_outline Susanne Bolte
  • person_outline Fabrice Cordelieres

Additional information


Publication for Just Another Colocalization Plugin

JACoP citations


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

[…] 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 considered negative fo […]


Small GTPases and BAR domain proteins regulate branched actin polymerisation for clathrin and dynamin independent endocytosis

Nat Commun
PMCID: 5943408
PMID: 29743604
DOI: 10.1038/s41467-018-03955-w
call_split See protocol

[…] and standard deviation as error bars. The statistical significance was calculated by Mann–Whitney U test. * represent p value <0.05.Co-localisation analysis: The analysis was performed by two methods.JaCoP (Just another co-loc plugin). An ImageJ plugin which has multiple options by which co-localisation between two molecules can be measured. The object-based overlap or Van Steensel cross-correlati […]


PrismPlus: a mouse line expressing distinct fluorophores in four different brain cell types

Sci Rep
PMCID: 5940666
PMID: 29739975
DOI: 10.1038/s41598-018-25208-y
call_split See protocol

[…] icients using Coste’s automatic threshold, M1 (fraction of transgenic fluorophores overlapping immunostained cells) and M2 (fraction of immunostained cells overlapping transgenic fluorophores), using JACOP plugin in ImageJ software. For YFP and NeuN pair, three blinded individuals performed manual cell count on the gray scale images to obtain the ratio of NeuN stained cells to YFP positive cells. […]


Compartmentalized Cyclic AMP Production by the Bordetella pertussis and Bacillus anthracis Adenylate Cyclase Toxins Differentially Affects the Immune Synapse in T Lymphocytes

Front Immunol
PMCID: 5938339
PMID: 29765373
DOI: 10.3389/fimmu.2018.00919
call_split See protocol

[…] lated for the entire cell and is expressed as relative recruitment index as previously described (). The quantitative colocalization analysis was performed on median optical sections using ImageJ and JACoP plug-in to determine Manders’ coefficient. […]


Mitochondria targeted Probes for Imaging Protein Sulfenylation

Sci Rep
PMCID: 5923234
PMID: 29703899
DOI: 10.1038/s41598-018-24493-x

[…] y, the threshold was automatically defined using Otsu-method and brightness adjusted, using the same values for any comparative analyses. The colocalization was analyzed with Li’s method using ImageJ JaCoP plugin,. […]


AMBRA1 Mediated Mitophagy Counteracts Oxidative Stress and Apoptosis Induced by Neurotoxicity in Human Neuroblastoma SH SY5Y Cells

PMCID: 5932353
PMID: 29755319
DOI: 10.3389/fncel.2018.00092
call_split See protocol

[…] r cell, in conditions indicated in the text, were calculated through the NIH ImageJ software in 10 different fields of three independent experiments. Colocalization measurements were made through the JACOP plugin (Bolte and Cordelières, ) of the NIH ImageJ software. M1 manders colocalization coefficients (MCC) of mitochondria overlapping LC3, p62 and Ubiquitin were calculated on single cells in 10 […]


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JACoP institution(s)
Plateforme d’Imagerie et de Biologie Cellulaire, IFR 87 ‘la Plante et son Environnement’, Institut des Sciences du Végétal, Gif-sur-Yvette, France; Institut Curie, CNRS UMR 146, Plateforme d’Imagerie Cellulaire et Tissulaire, Orsay, France
JACoP funding source(s)
Supported by the Association pour la Recherche contre le Cancer to the Plateforme d’Imagerie Cellulaire et Tissulaire, Institut Curie, Orsay; Action de Soutien à la Technologie et la Recherche en Essonne, Conseil de l’Essonne.

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