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Image Rendering Techniques in Postmortem Computed Tomography: Evaluation of Biological Health and Profile in Stranded Cetaceans
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Pre-CAT: A web-based, graphical user-interface toolbox for preclinical CEST-MRI data processing and analysis.

Jonah Weigand-Whittier, Samuel Rubin, Cindy Ayala

    Arxiv
    |May 7, 2026
    PubMed
    Summary
    This summary is machine-generated.

    A new open-source toolbox, Preclinical CEST-MRI Analysis Tool (Pre-CAT), standardizes preclinical CEST-MRI data analysis. This user-friendly GUI tool supports various acquisition types and simplifies complex imaging data processing.

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    Area of Science:

    • Medical Imaging
    • Biomedical Engineering
    • Radiology

    Background:

    • Chemical Exchange Saturation Transfer (CEST) Magnetic Resonance Imaging (MRI) is gaining interest in preclinical research.
    • Current CEST-MRI data analysis pipelines are often proprietary and lack standardization, hindering collaboration and reproducibility.
    • There is a need for accessible, standardized tools for preclinical CEST-MRI data processing and analysis.

    Purpose of the Study:

    • To develop an easy-to-use, open-source graphical user interface (GUI) toolbox for preclinical CEST-MRI data analysis, named Preclinical CEST-MRI Analysis Tool (Pre-CAT).
    • To support multiple acquisition types, organ systems, and CEST contrast mechanisms within a unified platform.
    • To standardize the preclinical CEST-MRI data analysis pipeline.

    Main Methods:

    • Pre-CAT was developed using Python, incorporating libraries such as Numpy, Scipy, and Matplotlib for data analysis and visualization.
    • The toolbox includes built-in functionalities for image loading, reconstruction, post-processing, and segmentation.
    • A web interface and GUI were created using Streamlit, enabling online accessibility and local installation for rapid data analysis.

    Main Results:

    • Demonstrated analysis pipelines for various CEST techniques, including Z-spectroscopy, CEST-MRF, and quantitative CEST (QUESP/QUEST).
    • The Pre-CAT toolbox facilitates efficient data analysis, with local installations completing pipelines in approximately one minute on modern hardware.
    • The tool supports consensus protocols and methods for QUESP, CEST-MRF, and field mapping experiments.

    Conclusions:

    • Pre-CAT aims to standardize preclinical CEST-MRI data analysis, promoting inter-research site collaboration and reducing methodological redundancy.
    • The open-source and modular nature of Pre-CAT encourages community contributions for incorporating new methods and protocols.
    • This toolbox provides a valuable resource for advancing preclinical CEST-MRI research through accessible and standardized analysis.