Supplementary Material for:

Bone CLARITY: Clearing, imaging, and computational analysis of osteoprogenitors within intact bone marrow

Alon Greenbaum, Ken Y. Chan, Tatyana Dobreva, David Brown, Deepak H. Balani, Rogely Boyce, Henry M. Kronenberg, Helen J. McBride, Viviana Gradinaru*

*Corresponding author. Email: viviana{at}caltech.edu

Published 26 April 2017, Sci. Transl. Med. 9, eaah6518 (2017)
DOI: 10.1126/scitranslmed.aah6518

This PDF file includes:

• Methods
• Fig. S1. Bone CLARITY clearing process.
• Fig. S2. The effect of amino alcohol on reducing autofluorescence.
• Fig. S3. Bone CLARITY setup.
• Fig. S4. Sample progression through Bone CLARITY clearing process.
• Fig. S5. LSFM setup.
• Fig. S6. Signal quality metrics to quantify imaging depth of Bone CLARITY.
• Fig. S7. Computational pipeline.
• Fig. S8. Volume comparisons in the tibia and femur.
• Fig. S9. tdTomato expression in the vertebral columns.
• Fig. S10. Antibody staining using Bone CLARITY.
• Legends for movies S1 to S3
• Reference (49)

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Other Supplementary Material for this manuscript includes the following:

• Movie S1 (.mov format). Visualizing endogenous fluorescence throughout a cleared mouse femur.
• Movie S2 (.mov format). Visualizing endogenous fluorescence throughout a cleared mouse tibia.
• Movie S3 (.mov format). Visualizing endogenous fluorescence throughout a cleared mouse vertebral body.
• Design file for the chamber holder (.stl)
• Raw data values for cell counts (.xlsx)