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Computational methods for analysis and reconstruction of biological networks

The exhaustive list of topics in Computational methods for analysis and reconstruction of biological networks in which we provide Help with Homework Assignment and Help with Project is as follows:

P2P networks 

  • Network characterization
    • Regulation of protein interaction networks
  • Evolution 
  • Biological data types: properties and limitations 
    • Protein sequences
    • Protein interaction assays
  • Reconstruction 
    • Data integration
    • Reconstructing higher level structures (complexes, linear pathways)

Metabolic networks 

  • Evolution 
  • Data types 
  • Reconstruction 
  • Network characterization
    • Flux balance analysis
    • Regulation of network
    • Network motifs

Regulatory networks 

  • Network characterization 
    • Network motifs & circuits
    • Modules
  • Evolution 
  • Biological data types: properties and limitations 
    • Gene expression
    • Sequence motifs
    • Physical binding assays
  • Reconstruction
    • Of cis-regulatory networks
    • Of general regulatory networks

Overview 

  • Biological networks components
    • Genes, RNAs, proteins
    • DNA and protein sequence elements
  • Types of edges
    • Regulation of different types
    • Physical interaction
    • Interaction with small molecules (e.g., metabolism)
  • Context specificity

Function 

  • Functional data
    • Genetic interactions
    • Phenotypes
  • Function and networks