ArticlePloS one2020
FLIMJ: An open-source ImageJ toolkit for fluorescence lifetime image data analysis.
Article in PloS one, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers, 1 of them a synthesis that pooled it.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
31 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Predicting immune checkpoint inhibitors response via fluorescence lifetime imaging microscopy: a systematic review.Frontiers in immunology · 2025Pooled it
- A computational super-resolution framework for multidimensional fluorescence imaging.Science advances · 2026Article
- FLIMExplorer: interactive GUI for object-based visualization and analysis of fluorescence lifetime images.JPhys photonics · 2026Article
- Emerging trends of fluorescence lifetime imaging microscopy (FLIM): advances, challenges, and prospects.Biophysics reports · 2026Article
- FLIM Playground: An interactive, end-to-end graphical user interface for analyzing single cells with fluorescence lifetime imaging microscopy.Cell reports methods · 2026Article
- Chemical fluorophores for fluorescence lifetime imaging.Chemical Society reviews · 2026Review
- A fluorescence lifetime separation approach for FLIM live-cell imaging.Journal of microscopy · 2026Article
- FLIM Playground: An interactive, end-to-end graphical user interface for analyzing single cells with fluorescence lifetime imaging microscopy.bioRxiv : the preprint server for biology · 2025Article
- Deep Learning for Fluorescence Lifetime Predictions Enables High-Throughput In Vivo Imaging.Journal of the American Chemical Society · 2025Article
- FLIMPA: A Versatile Software for Fluorescence Lifetime Imaging Microscopy Phasor Analysis.Analytical chemistry · 2025Article
- GSLab: open-source platform for advanced phasor analysis in fluorescence microscopy.Bioinformatics (Oxford, England) · 2025Article
- GSLab: Open-Source Platform for Advanced Phasor Analysis in Fluorescence Microscopy.bioRxiv : the preprint server for biology · 2025Article
- tttrlib: modular software for integrating fluorescence spectroscopy, imaging, and molecular modeling.Bioinformatics (Oxford, England) · 2025Article
- Consensus guidelines for cellular label-free optical metabolic imaging: ensuring accuracy and reproducibility in metabolic profiling.Journal of biomedical optics · 2025Article
- Tutorial: fluorescence lifetime microscopy of membrane mechanosensitive Flipper probes.Nature protocols · 2024Review
- Overcoming photon and spatiotemporal sparsity in fluorescence lifetime imaging with SparseFLIM.Communications biology · 2024Article
- 3D convolutional neural networks predict cellular metabolic pathway use from fluorescence lifetime decay data.APL bioengineering · 2024Article
- SciJava Ops: an improved algorithms framework for Fiji and beyond.Frontiers in bioinformatics · 2024Article
- Single-photon microscopy to study biomolecular condensates.Nature communications · 2023Article
- Probing organoid metabolism using fluorescence lifetime imaging microscopy (FLIM): The next frontier of drug discovery and disease understanding.Advanced drug delivery reviews · 2023Review
Corrections and comments
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Authors and funding
8 authors.
Funding
Abstract
In the field of fluorescence microscopy, there is continued demand for dynamic technologies that can exploit the complete information from every pixel of an image. One imaging technique with proven ability for yielding additional information from fluorescence imaging is Fluorescence Lifetime Imaging Microscopy (FLIM). FLIM allows for the measurement of how long a fluorophore stays in an excited energy state, and this measurement is affected by changes in its chemical microenvironment, such as proximity to other fluorophores, pH, and hydrophobic regions. This ability to provide information about the microenvironment has made FLIM a powerful tool for cellular imaging studies ranging from metabolic measurement to measuring distances between proteins. The increased use of FLIM has necessitated the development of computational tools for integrating FLIM analysis with image and data processing. To address this need, we have created FLIMJ, an ImageJ plugin and toolkit that allows for easy use and development of extensible image analysis workflows with FLIM data. Built on the FLIMLib decay curve fitting library and the ImageJ Ops framework, FLIMJ offers FLIM fitting routines with seamless integration with many other ImageJ components, and the ability to be extended to create complex FLIM analysis workflows. Building on ImageJ Ops also enables FLIMJ's routines to be used with Jupyter notebooks and integrate naturally with science-friendly programming in, e.g., Python and Groovy. We show the extensibility of FLIMJ in two analysis scenarios: lifetime-based image segmentation and image colocalization. We also validate the fitting routines by comparing them against industry FLIM analysis standards.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.