ArticleFrontiers in bioengineering and biotechnology2021
Comparative Analyses of Clearing Efficacies of Tissue Clearing Protocols by Using a Punching Assisted Clarity Analysis.
Article in Frontiers in bioengineering and biotechnology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.
What it found
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Who cites it
8 citing papers in PubMed, 13 citations in OpenAlex.
- Comparative analysis of clearing methods for 3D imaging of the vasculature in mineralized mouse tissues.iScience · 2026Article
- Compatibility of fast tissue clearing with targeted fluorescence imaging and pathology analysis using clinical head and neck cancer biopsies.Scientific reports · 2025Article
- In-depth 3D exploration of autosomal dominant polycystic kidney disease through light sheet fluorescence microscopy.Scientific reports · 2025Article
- A pipeline for mouse brain registration to an atlas after in vivo neurophysiological recordings.Anatomical science international · 2025Article
- Optimization of Tissue Clearing Methods and Imaging Conditions for 3D Visualization of the Vasculature of the Adult Murine Knee.bioRxiv : the preprint server for biology · 2025Article
- Tissue clearing and imaging approaches for in toto analysis of the reproductive system†.Biology of reproduction · 2024Review
- Successful 3D imaging of cleared biological samples with light sheet fluorescence microscopy.The Journal of cell biology · 2023Review
- Multiplex imaging in immuno-oncology.Journal for immunotherapy of cancer · 2023Review
Corrections and comments
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Authors and funding
6 authors at 4 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The advent of tissue clearing methods, in conjunction with novel high-resolution imaging techniques, has enabled the visualization of three-dimensional structures with unprecedented depth and detail. Although a variety of clearing protocols have been developed, little has been done to quantify their efficacies in a systematic, reproducible fashion. Here, we present two simple assays, Punching-Assisted Clarity Analysis (PACA)-Light and PACA-Glow, which use easily accessible spectroscopy and gel documentation systems to quantify the transparency of multiple cleared tissues simultaneously. We demonstrate the use of PACA-Light and PACA-Glow to compare twenty-eight tissue clearing protocols on rodent brains. We also show that regional differences exist in tissue transparency in the rodent brain, with cerebellar tissue consistently achieving lower clearing levels compared to the prefrontal or cerebral cortex across all protocols. This represents the largest comparative study of tissue clearing protocols to date, made possible by the high-throughput nature of our PACA platforms.
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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.