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Additional Supporting Information may be found in the online version of this article.

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STEM_1059_sm_SuppFig1.pdf1160KSupplemental Figure 1. Histology and cell differentiation in Notch1Δ/Δ embryonic lungs. A. Overall morphology and H&E-stained sections of Notch1Δ/Δ and Notch1fl/fl (control) lungs at two embryonic stages. Panels “a” to “d”, E15.5, & Panels “e” to “h”, E18.5 lungs. B. Clara cell differentiation in E18.5 lungs. C. NE, ciliated and alveolar type I cell differentiation in E18.5 lungs (Panels “m” to “r”). Expression of SP-C, SP-B and NKX2.1 in E18.5 lungs (Panels “s” to “x”).
STEM_1059_sm_SuppFig2.pdf329KSupplemental Figure 2. Histology and cell differentiation in Notch1Δ/Δ adult lung. H&E staining analysis of Notch1fl/fl and Notch1Δ/Δ adult lungs (Panels a & b). Clara and ciliated cell differentiation in Notch1fl/fl and Notch1Δ/Δ adult lungs (Panels c & d).
STEM_1059_sm_SuppFig3.pdf94KSupplemental Figure 3. Cell differentiation in Notch1Δ/Δ embryonic lungs. CC10, Foxj1, PGP9.5, SpB, SpC and Nkx2.1 in E18.5 Notch1fl/fl and Notch1Δ/Δ lungs were analyzed by real-time PCR.
STEM_1059_sm_SuppFig4.tif424KSupplemental Figure 4. Colocalization of activated NOTCH1 with markers for Clara or ciliated cells in wild-type E18.5 lungs. Immunolocalization of activated NOTCH1 and CC10 (Panel a) or β-tubulin (Panel b) in wild-type E18.5 lungs. Double positive cells (arrow) and single positive cells (triangle).
STEM_1059_sm_SuppFig5.tif470KSupplemental Figure 5. PGP9.5positive cells are not ciliated cells in injured and noninjured lungs. Immunolocalization of PGP9.5 and β - tubulin in uninjured lungs (Panels a & c) and lungs after 3 days of naphthalene injury (Panels b & d). PGP9.5positive (red, arrow) and β - tubulinpositive (green, triangle).
STEM_1059_sm_SuppFig6.tif1086KSupplemental Figure 6. Quantification of cell proliferation after Naphthalene injury. A. Percentage of proliferating cells (Ki67positive) on days 2, 3, 5 and 7 post-injury. Oil was used as injury control. B. Percent proliferating Clara cells (double Ki67positive; CC10positive cells) in airways of control and mutant mice. C. Percent proliferating PGP9.5positive cells (double Phospho-Histone3positive; PGP9.5positive cells) in the airways of mutant and control mice. Cell numbers were determined by manual counting on multiple random fields (n=10).

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