Data Availability
Data available on request from the authors.
Notes
Bolte, S., & Cordelières, F. P. (2006). A guided tour into subcellular colocalization analysis inlightmicroscopy. Journal of Microscopy. https://doi.org/10.1111/j.1365-2818.2006.01706.x.
Jaskolski, F., Mulle, C., & Manzoni, O. J. (2005). An automated method to quantify and visualize colocalized fluorescent signals. Journal of Neuroscience Methods, 146(1), 42–49. https://doi.org/10.1016/J.JNEUMETH.2005.01.012.
Schneider, C. A., Rasband, W. S., & Eliceiri, K. W. (2012). NIH Image to ImageJ: 25 years of image analysis. Nature Methods, 9(7), 671–675. https://doi.org/10.1038/nmeth.2089.
Li, Q., Lau, A., Morris, T. J., Guo, L., Fordyce, C. B., & Stanley, E. F. (2004). A syntaxin 1, Galpha(o), and N-type calcium channel complex at a presynaptic nerve terminal: analysis by quantitative immunocolocalization. The Journal of Neuroscience, 24(16), 4070–4081. https://doi.org/10.1523/JNEUROSCI.0346-04.2004.
Ridler, T. W., & Calvard, S. (1978). Picture thresholding using an iterative selection method. IEEE Transactions on Systems, Man, and Cybernetics, 8(8), 630–632. https://doi.org/10.1109/TSMC.1978.4310039.
Schinder, A. F., & Poo, M. (2000). The neurotrophin hypothesis for synaptic plasticity. Trends in Neurosciences, 23(12), 639–645. https://doi.org/0.1016/s0166-2236(00)01672-6.
Zheng, F., Zhou, X., Moon, C., & Wang, H. (2012). Regulation of brain-derived neurotrophic factor expression in neurons. International Journal of Physiology, Pathophysiology and Pharmacology, 4(4), 188–200.
Ghosh, A., Carnahan, J., & Greenberg, M. (1994). Requirement for BDNF in activity-dependent survival of cortical neurons. Science, 263(5153), 1618–1623. https://doi.org/10.1126/science.7907431.
Tao, X., West, A. E., Chen, W. G., Corfas, G., & Greenberg, M. E. (2002). A calcium-responsive transcription factor, CaRF, that regulates neuronal activity-dependent expression of BDNF. Neuron, 33(3), 383–395. https://doi.org/10.1016/s0896-6273(01)00561-x.
Walczak, A., Szczepankiewicz, A. A., Ruszczycki, B., Magalska, A., Zamlynska, K., Dzwonek, J., et al. (2013). Novel higher-order epigenetic regulation of the Bdnf gene upon seizures. The Journal of Neuroscience, 33(6), 2507–2511. https://doi.org/10.1523/JNEUROSCI.1085-12.2013.
Mulle, C., Sailer, A., Pérez-Otaño, I., Dickinson-Anson, H., Castillo, P. E., Bureau, I., et al. (1998). Altered synaptic physiology and reduced susceptibility to kainate-induced seizures in GluR6-deficient mice. Nature, 392(6676), 601–605. https://doi.org/10.1038/33408.
Blendy, J. A., Schmid, W., Kiessling, M., Schütz, G., & Gass, P. (1995). Effects of kainic acid induced seizures on immediate early gene expression in mice with a targeted mutation of the CREB gene. Brain Research, 681(1–2), 8–14. https://doi.org/10.1016/0006-8993(95)00274-T.
Nahm, W. K., & Noebels, J. L. (1998). Nonobligate role of early or sustained expression of immediate-early gene proteins c-fos, c-jun, and Zif/268 in hippocampal mossy fiber sprouting. The Journal of Neuroscience, 18(22), 9245–9255.
Cremer, M., Grasser, F., Lanctôt, C., Müller, S., Neusser, M., Zinner, R., Solovei, I., & Cremer, T. (2008). Multicolor 3D fluorescence in situ hybridization for imaging interphase chromosomes. Methods in Molecular Biology, 463, 205–239. https://doi.org/10.1007/978-1-59745-406-3_15.
Acknowledgements
Microscopic acquisition was performed in the Laboratory of Imaging Tissue Structure and Function -a service unit of the Nencki Institute of Experimental Biology.
Funding
This work was supported by the National Science Center grant (2013/08/M/NZ3/00655). Grzegorz Wilczynski was partially supported by the European Regional Development Fund POIG 01.01.02–00-008/08. Adam Gorlewicz was partially supported by the National Science Center grant (2015/19/D/NZ7/02402). Andrzej A. Szczepankiewicz was partially supported by the National Science Center grant (2014/15/N/NZ3/04468). Pawel Trzaskoma was partially supported by the National Science Center grant (2014/15/N/NZ2/00379).
Author information
Authors and Affiliations
Corresponding authors
Ethics declarations
Conflicts of Interest/Competing Interests
The authors declare no conflict of interest.
Ethics Approval
All procedures were performed with the consent of the Ethical Committee at the Nencki Institute and in accordance with the European Union (EU) guidelines (directive 2010/63/UE).
Consent to Participate
Not applicable.
Consent for Publication
Not applicable.
Code Availability
Code is available at https://github.com/AdamGorlewicz/Colocalization-colormap.
Additional information
Publisher’s Note
Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.
Rights and permissions
About this article
Cite this article
Gorlewicz, A., Krawczyk, K., Szczepankiewicz, A.A. et al. Colocalization Colormap –an ImageJ Plugin for the Quantification and Visualization of Colocalized Signals. Neuroinform 18, 661–664 (2020). https://doi.org/10.1007/s12021-020-09465-9
Published:
Issue Date:
DOI: https://doi.org/10.1007/s12021-020-09465-9