ArticleScientific reports2017
MatCol: a tool to measure fluorescence signal colocalisation in biological systems.
Article in Scientific reports, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed.
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- DRG2 is required for surface localization of PD-L1 and the efficacy of anti-PD-1 therapy.Cell death discovery · 2024Article
- A multiparametric analysis including single-cell and subcellular feature assessment reveals differential behavior of spheroid cultures on distinct ultra-low attachment plate types.Frontiers in bioengineering and biotechnology · 2024Article
- Starvation insult induces the translocation of high mobility group box 1 to cytosolic compartments in glioma.Oncology reports · 2023Article
- SpotitPy: a semi-automated tool for object-based co-localization of fluorescent labels in microscopy images.BMC bioinformatics · 2022Article
- Co-localization of fluorescent signals using deep learning with Manders overlapping coefficient.Proceedings of SPIE--the International Society for Optical Engineering · 2021Article
- Tailored co-localization analysis of intracellular microbes and punctum-distributed phagosome-lysosome pathway proteins using ImageJ plugin EzColocalization.Scientific reports · 2021Article
- A versatile toolbox for semi-automatic cell-by-cell object-based colocalization analysis.Scientific reports · 2020Article
- Promotion of β-catenin/Foxo1 signaling ameliorates renal interstitial fibrosis.Laboratory investigation; a journal of technical methods and pathology · 2019Article
- Delayed recruiting of TPD52 to lipid droplets - evidence for a "second wave" of lipid droplet-associated proteins that respond to altered lipid storage induced by Brefeldin A treatment.Scientific reports · 2019Article
- Automating measurements of fluorescent signals in freely moving plant leaf specimens.Plant biotechnology (Tokyo, Japan) · 2019Article
- EzColocalization: An ImageJ plugin for visualizing and measuring colocalization in cells and organisms.Scientific reports · 2018Article
- Automated classification and characterization of the mitotic spindle following knockdown of a mitosis-related protein.BMC bioinformatics · 2017Article
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Authors and funding
5 authors.
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Abstract
Protein colocalisation is often studied using pixel intensity-based coefficients such as Pearson, Manders, Li or Costes. However, these methods cannot be used to study object-based colocalisations in biological systems. Therefore, a novel method is required to automatically identify regions of fluorescent signal in two channels, identify the co-located parts of these regions, and calculate the statistical significance of the colocalisation. We have developed MatCol to address these needs. MatCol can be used to visualise protein and/or DNA colocalisations and fine tune user-defined parameters for the colocalisation analysis, including the application of median or Wiener filtering to improve the signal to noise ratio. Command-line execution allows batch processing of multiple images. Users can also calculate the statistical significance of the observed object colocalisations compared to overlap by random chance using Student's t-test. We validated MatCol in a biological setting. The colocalisations of telomeric DNA and TRF2 protein or TRF2 and PML proteins in >350 nuclei derived from three different cell lines revealed a highly significant correlation between manual and MatCol identification of colocalisations (linear regression R
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