Computational Molecular Biology


Stanford School of Medicine



Gain a dynamic and practical perspective of computational molecular biology while exploring the most prevalent issues in the field. Critically dissect existing methods for representing and analyzing genomes, sequences, and proteins to find the strengths and limitations of each. Class projects will help molecular biologists and computer scientists to understand the major issues concerning genomes, sequences and structures.

This course is cross listed with BIOC218.

Topics Include

  • Genome databases
  • Quantitative and probabilistic pattern matching
  • Protein sequence and structural motifs
  • Pathway bioinformatics


Genetics, Biochemistry, and Molecular Biology (Stanford Course: BIO 41) or consent of instructor



There will be 7 homework assignments utilizing the tools described in the lectures. A final paper will be required for the course that critically and constructively analyzes one of the areas presented in the course.

  • Homework- 35%
  • Project- 65%


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