UTRCOV2

This repo contains the code for CAMDA 2021 paper "Unraveling T cell responses for long term protection of SARS-CoV-2 infection".

Table of Contents

• CD4+ T Cells & CD8+ T Cells
  • 01_Loading_and_Preprocessing
  • 02_Differential_Expression_Analysis
  • 03_MLP_on_DE_Genes
  • 04_Prepare_Submatrix_for_Network
  • 05_Develop_PIDC_Network (using Julia)
  • 06_Permutation_Test_between_Networks
  • 07_Network_Visualization
  • 08_Functional_Annotation
• B Cells
  • 01_Loading_and_Preprocessing
  • 02_Differential_Expression_Analysis
  • 03_MLP_on_DE_Genes
  • 04_Functional_Annotation
• Bulk Blood Sample
  • Bulk_Data_Analysis

Citation

Wu, D., Zhang, R., & Datta, S. (2022). Unraveling T cell responses for long term protection of SARS-CoV-2 infection. Frontiers in Genetics, 13:871164. https://doi.org/10.3389/fgene.2022.871164