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Protein Prediction assignments from TUM

Notes

Exercise 0:

  • Longest common subsequences
  • Shortest common supersequences
  • Levenshtein distance, similar motifs

Exercise 1:

  • Codon distribution
  • Expected amino acid distribution
  • Open reading frames

Exercise 2:

  • Protein Data Bank class, B-Factors

Exercise 3:

  • Global alignment
  • Local alignment

Exercise 4:

  • Position-specific scoring matrix
  • Multiple sequence alignment

Exercise 5:

  • BLAST local alignment

Exercise 6:

  • Numpy Perceptron

Exercise 7:

  • AlphaFold (sources are lost)