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Extended Data Figure 6f: Two-way ANOVA with Tukey’s test
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                  Df Sum Sq Mean Sq F value   Pr(>F)    
Condition           2  680.2   340.1  53.799 5.52e-13 ***
Genotype            1  148.8   148.8  23.542 1.33e-05 ***
Condition:Genotype  2   39.8    19.9   3.151   0.0518 .  
Residuals          48  303.4     6.3                     
---
Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1

  Tukey multiple comparisons of means
    95% family-wise confidence level

Fit: aov(formula = average_number_tau_puncta_per_100_umsq ~ Condition * Genotype, data = vacuoledata)

$Condition
                          diff      lwr       upr    p adj
Mild dTBI-Sham        3.920460 1.893536  5.947384 7.01e-05
Severe dTBI-Sham      8.679975 6.653050 10.706899 0.00e+00
Severe dTBI-Mild dTBI 4.759514 2.732590  6.786438 2.30e-06

$Genotype
                                        diff      lwr       upr    p adj
repoGS,0N4R>kayDN-repoGS,0N4R>5905 -3.320238 -4.69612 -1.944356 1.33e-05

$`Condition:Genotype`
                                                                  diff          lwr        upr     p adj
Mild dTBI:repoGS,0N4R>5905-Sham:repoGS,0N4R>5905             6.0212708   2.50358443  9.5389572 0.0000863
Severe dTBI:repoGS,0N4R>5905-Sham:repoGS,0N4R>5905           9.6306061   6.11291969 13.1482925 0.0000000
Sham:repoGS,0N4R>kayDN-Sham:repoGS,0N4R>5905                -1.2859431  -4.80362947  2.2317433 0.8849723
Mild dTBI:repoGS,0N4R>kayDN-Sham:repoGS,0N4R>5905            0.5337065  -2.98397989  4.0513929 0.9975270
Severe dTBI:repoGS,0N4R>kayDN-Sham:repoGS,0N4R>5905          6.4433998   2.92571345  9.9610862 0.0000256
Severe dTBI:repoGS,0N4R>5905-Mild dTBI:repoGS,0N4R>5905      3.6093353   0.09164885  7.1270217 0.0412560
Sham:repoGS,0N4R>kayDN-Mild dTBI:repoGS,0N4R>5905           -7.3072139 -10.82490030 -3.7895275 0.0000020
Mild dTBI:repoGS,0N4R>kayDN-Mild dTBI:repoGS,0N4R>5905      -5.4875643  -9.00525072 -1.9698779 0.0003854
Severe dTBI:repoGS,0N4R>kayDN-Mild dTBI:repoGS,0N4R>5905     0.4221290  -3.09555738  3.9398154 0.9991986
Sham:repoGS,0N4R>kayDN-Severe dTBI:repoGS,0N4R>5905        -10.9165492 -14.43423555 -7.3988628 0.0000000
Mild dTBI:repoGS,0N4R>kayDN-Severe dTBI:repoGS,0N4R>5905    -9.0968996 -12.61458598 -5.5792132 0.0000000
Severe dTBI:repoGS,0N4R>kayDN-Severe dTBI:repoGS,0N4R>5905  -3.1872062  -6.70489264  0.3304802 0.0962277
Mild dTBI:repoGS,0N4R>kayDN-Sham:repoGS,0N4R>kayDN           1.8196496  -1.69803682  5.3373360 0.6437591
Severe dTBI:repoGS,0N4R>kayDN-Sham:repoGS,0N4R>kayDN         7.7293429   4.21165652 11.2470293 0.0000006
Severe dTBI:repoGS,0N4R>kayDN-Mild dTBI:repoGS,0N4R>kayDN    5.9096933   2.39200694  9.4273797 0.0001184


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Extended Data Figure 6g: Kaplan-Meier analysis with Log-rank comparison
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  Pairwise comparisons using Log-Rank test 

data:  mySurvivalData and group 

                            Mild dTBI+repoGS,0N4R>5905 Mild dTBI+repoGS,0N4R>kayDN Sham+repoGS,0N4R>5905
Mild dTBI+repoGS,0N4R>kayDN 0.049                      -                           -                    
Sham+repoGS,0N4R>5905       8.2e-09                    9.5e-08                     -                    
Sham+repoGS,0N4R>kayDN      0.218                      0.034                       4.7e-10              

P value adjustment method: BH