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Statistical analysis

JF João Pedro Ferrari-Souza
TP Tharick A. Pascoal

Last updated date: May 14, 2025 Views: 6 Forks: 0

original An abbreviated version of this protocol was published in Science Advances in Apr, 2023
APOEε4 associates with microglial activation independently of Aβ plaques and tau tangles
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library(lavaan)

 

### Model 1 (Braak I-II)

 

Model_01 <- 'CDR_sum_of_boxes ~ HC_vol_Adj + MK_braak12_SUVR + PBR_braak12_SUVR + NeoctxAZD_SUVR + years_of_education + age_at_mri + sex
HC_vol_Adj ~ MK_braak12_SUVR + PBR_braak12_SUVR + NeoctxAZD_SUVR + years_of_education + age_at_mri + sex
MK_braak12_SUVR ~  apoe4_status + PBR_braak12_SUVR + NeoctxAZD_SUVR + age_at_mri + sex
PBR_braak12_SUVR ~ apoe4_status + NeoctxAZD_SUVR + age_at_mri + sex
NeoctxAZD_SUVR ~ apoe4_status + age_at_mri + sex'

 

fit01 <- sem(Model_01, data=data) 
summary(fit01, standardized=T, fit.measures=T, rsq=T, ci = TRUE)

 

fit01_boot <- sem(Model_01, data=data, verbose= T, test = "bootstrap", se = "bootstrap", bootstrap = 1000)
parameterEstimates(fit01_boot, boot.ci.type = "norm", standardized = TRUE, rsq=T)
standardizedSolution(fit01_boot,  type = "std.all")

 

### Model 2 (Braak III-IV)

 

Model_02 <- 'CDR_sum_of_boxes ~ HC_vol_Adj + MK_braak34_SUVR + PBR_braak34_SUVR + NeoctxAZD_SUVR + years_of_education + age_at_mri + sex
HC_vol_Adj ~ MK_braak34_SUVR + PBR_braak34_SUVR + NeoctxAZD_SUVR + years_of_education + age_at_mri + sex
MK_braak34_SUVR ~  apoe4_status + PBR_braak34_SUVR + NeoctxAZD_SUVR + age_at_mri + sex
PBR_braak34_SUVR ~ apoe4_status + NeoctxAZD_SUVR + age_at_mri + sex
NeoctxAZD_SUVR ~ apoe4_status + age_at_mri + sex'

 

fit02 <- sem(Model_02, data=data) 
summary(fit02, standardized=T, fit.measures=T, rsq=T, ci = TRUE)

 

fit02_boot <- sem(Model_02, data=data, verbose= T, test = "bootstrap", se = "bootstrap", bootstrap = 1000)
parameterEstimates(fit02_boot, boot.ci.type = "norm", standardized = TRUE, rsq=T)
standardizedSolution(fit02_boot,  type = "std.all")

Copyright: © 2025 The Author(s); This is an open-access article under the CC BY-NC license (https://creativecommons.org/licenses/by-nc/4.0/).
How to cite：
Readers should cite both the Bio-protocol preprint and the original research article where this protocol was used:
  1. Ferrari-Souza, J and Pascoal, T A(2025). Statistical analysis. Bio-protocol Preprint. bio-protocol.org/prep2817.
  2. Ferrari-Souza, J. P., Lussier, F. Z., Leffa, D. T., Therriault, J., Tissot, C., Bellaver, B., Ferreira, P. C., Malpetti, M., Wang, Y., Povala, G., Benedet, A. L., Ashton, N. J., Chamoun, M., Servaes, S., Bezgin, G., Kang, M. S., Stevenson, J., Rahmouni, N., Pallen, V., Poltronetti, N. M., O’Brien, J. T., Rowe, J. B., Cohen, A. D., Lopez, O. L., Tudorascu, D. L., Karikari, T. K., Klunk, W. E., Villemagne, V. L., Soucy, J., Gauthier, S., Souza, D. O., Zetterberg, H., Blennow, K., Zimmer, E. R., Rosa-Neto, P. and Pascoal, T. A.(2023). APOEε4 associates with microglial activation independently of Aβ plaques and tau tangles. Science Advances 9(14). DOI: 10.1126/sciadv.ade1474

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