Imaging Workflow Resources

Use these only if you need inspiration—your own protocols are welcome!

Hybridization Dhain Reaction (HCR)

Choi, Harry M T et al. “Third-generation in situ hybridization chain reaction: multiplexed, quantitative, sensitive, versatile, robust.” Development (Cambridge, England) vol. 145,12 dev165753. 26 Jun. 2018, doi:10.1242/dev.165753

iDISCO and HCR

Kramer, Emily E et al. “Assessing Individual Neuronal Activity Across the Intact Brain: Using Hybridization Chain Reaction (HCR) to Detect Arc mRNA Localized to the Nucleus in Volumes of Cleared Brain Tissue.” Current protocols in neuroscience vol. 84,1 (2018): e49. doi:10.1002/cpns.49

Sunadome, K., Erickson, A.G., Kah, D. et al. Directionality of developing skeletal muscles is set by mechanical forces. Nat Commun 14, 3060 (2023). https://doi.org/10.1038/s41467-023-38647-7

Hybrid open-top light-sheet microscopy

Glaser, A.K., Bishop, K.W., Barner, L.A. et al. A hybrid open-top light-sheet microscope for versatile multi-scale imaging of cleared tissues. Nat Methods 19, 613–619 (2022). https://doi.org/10.1038/s41592-022-01468-5

Webinars on 3D Imaging

Revealing Hidden Structures: Cutting-Edge Tissue Clearing for 3D Imaging

Revealing Hidden Structures: Cutting-Edge 3D Imaging & Common Image Artifacts

Tissue Harvest and Clearing Protocols from Alpenglow Biosciences

Alpenglow protocol for tissue clearing with immunolabeling

Alpenglow Animal Tissue Harvest and Storage

Alpenglow Biosciences offer specialized protocols for:
• Lipid-rich tissue clearing with immunolabeling
• Computational H&E
• Endogenous-fluorescence preservation

Get any of these on request—just email elisa@alpenglowbiosciences.com.