R_practice

Content

• SVM: Cancer class prediction from gene expression by using SVM.

  • data.zip: training dataset and test dataset. Expression profile of 2308 genes.
  • model: R library e1071.

• RNA-seq analyze pepeline

  • PC_analysis.R
  • GO_analysis.R

References

[1] Tibshirani, Robert, et al. "Diagnosis of multiple cancer types by shrunken centroids of gene expression." Proceedings of the National Academy of Sciences 99.10 (2002): 6567-6572.

[2] Bertero, Alessandro, et al. "Dynamics of genome reorganization during human cardiogenesis reveal an RBM20-dependent splicing factory." Nature communications 10.1 (2019): 1-19.