TCGA Biomarkers Identification Using Machine Learning - Complete Walkthrough

TCGA Biomarkers Identification Using Machine Learning - Complete Walkthrough

LiquidBrain Bioinformatics via YouTube Direct link

Chapter 2 - Neural network construction

9 of 16

9 of 16

Chapter 2 - Neural network construction

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TCGA Biomarkers Identification Using Machine Learning - Complete Walkthrough

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  1. 1 Introduction and background
  2. 2 Chapter 1 - Installing packages and importing libraries
  3. 3 Using TCGA Biolinks
  4. 4 Structuring Input data and filtering
  5. 5 PlotMDS from limma and edgeR
  6. 6 Normalization of data
  7. 7 PCA Analysis
  8. 8 Making Train Label and One -hot Encoding
  9. 9 Chapter 2 - Neural network construction
  10. 10 Neural networking Training model fitting
  11. 11 Saving Model as hdf5 files
  12. 12 Extraction weights and bias
  13. 13 Extraction of GOI using weights and bias
  14. 14 Chapter 3 - Gene set enrichment analysis
  15. 15 Results!!!!!!
  16. 16 Some major issues with this approach

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