Figure ED7e - FACS data analysis
Analysis of myeloid cell density during microglia ablation and reinfiltration of embryos treated with PLX5622 or control chow from E9 to E12. The pregnant dams were Trt with “control” or “PLX” chow, and the embryos were collected at Age E12, E16, or P1. We FACS sorted the CD45+,CD11b+ cells and normalized to the control. Data is presented as a ratio of control.
Samples
## Stage
## Treatment E12 E16 P1
## Control 6 6 7
## PLX 6 6 6Plot
Perform t-test on E12 FACS data
## Shapiro test for normality p-value
## E12.control 0.911
## E12.mia 0.725##
## Welch Two Sample t-test
##
## data: E12$Myeloid by E12$Trt
## t = 5, df = 6, p-value = 0.002
## alternative hypothesis: true difference in means is not equal to 0
## 95 percent confidence interval:
## 0.403 1.131
## sample estimates:
## mean in group Control mean in group PLX
## 1.000 0.233Conclusion: Data was normally distributed therefore a t-test was performed. PLX significantly decreased the myeloid cells in E12 embryos.
Perform t-test on E16 FACS data
## Shapiro test for normality p-value
## E16.control 0.940
## E16.mia 0.202##
## Welch Two Sample t-test
##
## data: E16$Myeloid by E16$Trt
## t = 5, df = 8, p-value = 0.002
## alternative hypothesis: true difference in means is not equal to 0
## 95 percent confidence interval:
## 0.102 0.313
## sample estimates:
## mean in group Control mean in group PLX
## 1.000 0.793Conclusion: Data was normally distributed therefore a t-test was performed. Myeloid cell repopulation after PLX treatment is still significantly decreased in E16 embryos.
Perform t-test on P1 FACS data
## Shapiro test for normality p-value
## P1.control 0.695
## P1.mia 0.230##
## Welch Two Sample t-test
##
## data: P1$Myeloid by P1$Trt
## t = -2, df = 7, p-value = 0.05
## alternative hypothesis: true difference in means is not equal to 0
## 95 percent confidence interval:
## -0.73000 -0.00126
## sample estimates:
## mean in group Control mean in group PLX
## 1.00 1.37Conclusion: Data was normally distributed therefore a t-test was performed. Myeloid cell repopulation is recovered after PLX treatment but is slightly increased at P1.
Reproducibility info
## [1] "2019-05-01 14:20:56 EDT"## ─ Session info ──────────────────────────────────────────────────────────
## setting value
## version R version 3.6.0 (2019-04-26)
## os macOS Mojave 10.14.3
## system x86_64, darwin15.6.0
## ui X11
## language (EN)
## collate en_US.UTF-8
## ctype en_US.UTF-8
## tz America/New_York
## date 2019-05-01
##
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##
## [1] /Library/Frameworks/R.framework/Versions/3.6/Resources/library