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FociCounter specifications


Unique identifier OMICS_14859
Name FociCounter
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux, Windows
Programming languages Python
License GNU General Public License version 3.0
Computer skills Medium
Version 1.0
Stability Stable
GTK, pycairo, pygobject, pygtk, PIL
Maintained Yes


No version available


  • person_outline Anna Lankoff

Publication for FociCounter

FociCounter citations


Estimation of the effects of medical diagnostic radiation exposure based on DNA damage

PMCID: 5941141
PMID: 29518207
DOI: 10.1093/jrr/rry006

[…] diagnostic radiation exposure, such as from a CT scan.Manual quantification of the γ-H2AX foci, however, is laborious and time-consuming work. Therefore, image analysis software, such as Image J and FociCounter, is used for the quantification of γ-H2AX foci [, ]. Several microscope systems allow automatic image capture and quantification of foci, including the MetaCyte (MetaSystems GmbH, Germany) […]


Histone Deacetylase Inhibitor Induced Radiation Sensitization Effects on Human Cancer Cells after Photon and Hadron Radiation Exposure

Int J Mol Sci
PMCID: 5855718
PMID: 29414878
DOI: 10.3390/ijms19020496
call_split See protocol

[…] e, CA, USA). Three independent experiments were performed. At least 50 cells were analyzed for each experiment. Manual and Foci counter software-based counting was performed for foci analysis ( analysis shows the presence of repair proteins and phosphorylated form of histone proteins and indirect measurement of DNA damage and repair. In order to q […]


The hypoxia activated prodrug evofosfamide in combination with multiple regimens of radiotherapy

PMCID: 5410338
PMID: 28423594
DOI: 10.18632/oncotarget.15784

[…] nol (1 μg/ml) for 3 min, before fixation with Dako Fluorescent Mounting Medium (Dako, North America). Images were taken using a Leica DM 5500 microscope at a magnification of 40x and quantified using FociCounter software. At least 50 cells/condition were analyzed. […]


The non coding landscape of head and neck squamous cell carcinoma

PMCID: 5239470
PMID: 27323410
DOI: 10.18632/oncotarget.9979

[…] γ-H2AX foci were quantified using the FociCounter program ( For each sample, the average number of γ-H2AX foci per cell was determined using at least 7 images taken from different fields on the cover s […]


High throughput toxicity screening and intracellular detection of nanomaterials

PMCID: 5215403
PMID: 27273980
DOI: 10.1002/wnan.1413

[…] algorithms for foci identification or the calculation of quantitative foci parameters., , High content imaging systems are also capable of γH2AX quantitation. Specialized software for counting foci (FociCounter) has been developed. The latest development is the incorporation of focus counting into an automated high throughput image acquisition and processing platform. Recently, Harris et al. have […]


FoCo: a simple and robust quantification algorithm of nuclear foci

BMC Bioinformatics
PMCID: 4654864
PMID: 26589438
DOI: 10.1186/s12859-015-0816-5

[…] arying background both within and among images. Therefore, we tested various tools for automatic foci detection. In a literature search, the open source software tools CellProfiler [], ImageJ [], and FociCounter [] were found to be the most promising tools for automatic foci counting []. However, FociCounter is a semi-automatic method, because it needs manual operations for nuclei detection. There […]


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FociCounter institution(s)
Institute of Theoretical Physics, University of Wroclaw, Poland; Institute of Biology, Jan Kochanowski University, Kielce, Poland; GMT Department, Stockholm University, Stockholm, Sweden; Institute of Nuclear Chemistry and Technology, Warsaw, Poland

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