Evidence map›Paper›PMID 42094269›Full record

ArticleArXiv2026

Pre-CAT: A web-based, graphical user-interface toolbox for preclinical CEST-MRI data processing and analysis.

Jonah Weigand-Whittier, Samuel Rubin, Cindy Ayala, Mark Velasquez, Nikita Vladimirov, Hadas Avraham, Or Perlman, M Roselle Abraham, Moriel H Vandsburger

Abstract readPreprint
PubMed Full text at PMC
In one paragraph

Article in ArXiv, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

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.

2 · The registry

The trial behind it

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.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

9 authors.

Jonah Weigand-WhittierDepartment of Bioengineering, University of California Berkeley, Berkeley, CA, USA.
Samuel RubinDepartment of Bioengineering, University of California Berkeley, Berkeley, CA, USA.
Cindy AyalaDepartment of Bioengineering, University of California Berkeley, Berkeley, CA, USA.
Mark VelasquezDepartment of Bioengineering, University of California Berkeley, Berkeley, CA, USA.
Nikita VladimirovSchool of Biomedical Engineering, Tel Aviv University, Tel Aviv, Israel.
Hadas AvrahamSchool of Biomedical Engineering, Tel Aviv University, Tel Aviv, Israel.
Or PerlmanSchool of Biomedical Engineering, Tel Aviv University, Tel Aviv, Israel.
M Roselle AbrahamUCSF School of Medicine, San Francisco, CA, USA.
Moriel H VandsburgerDepartment of Bioengineering, University of California Berkeley, Berkeley, CA, USA.

Funding

Molecular MRI for in vivo tracking of gene editing and gene edited cellsUH3EB028908 · NIBIB · UNIVERSITY OF CALIFORNIA BERKELEY · PI VANDSBURGER, MORIEL · 2021 to 2022
$953k
NIBIB NIH HHS UH3 EB028908
6 · The paper itself

Abstract

Purpose: As interest in CEST-MRI grows, particularly in the preclinical setting, the necessity for standardized and easy-to-use acquisition and data analysis pipelines has become apparent. While vendors have increasingly introduced support for CEST acquisitions on both clinical and preclinical hardware, image post-processing and analysis pipelines remain siloed based on privately developed code. We aim to develop an easy-to-use, open-source graphical user interface toolbox for pre-clinical CEST-MRI data analysis (Preclinical CEST-MRI Analysis Tool; Pre-CAT), supporting multiple acquisition types, organ systems, and CEST contrast mechanisms. Methods: Pre-CAT was developed in Python and utilizes the Numpy, Scipy, and Matplotlib libraries for data analysis and plotting. Inbuilt data processing steps include image loading, reconstruction, post-processing, and segmentation. Pre-CAT also supports data analysis for QUESP, CEST-MRF, and field mapping experiments using consensus protocols and methods. Pre-CAT's web interface and GUI were developed using Streamlit, an open-source Python framework. Pre-CAT is hosted and accessible online and can be downloaded for local installation to complete the data analysis pipeline in roughly one minute using modern hardware. Results: Pre-CAT analysis pipelines for Z-spectroscopy, CEST-MRF, and quantitative CEST (QUESP/QUEST) are demonstrated. Conclusion: With the introduction of Pre-CAT, we aim to standardize the preclinical CEST-MRI data analysis pipeline, fostering collaboration across research sites and reducing methodological redundancy. Pre-CAT is open-source and relatively modular, encouraging the addition of new methods and protocols.

Indexed as

chemical exchange saturation transferdata processingimage analysismagnetization transferpreclinical imagingsoftware

Identifiers

PMID42094269
PMCPMC13142558

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

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.