Competency information
Details
Produce a written summary of reference sequences and single-nucleotide polymorphisms (SNPs) within networks with phenotype information.
Considerations
- Robust and reproducible mechanisms for recording literature searches.
Bioinformatics pathway tools
- Databases of metabolic networks (KEGG, Panther, etc.).
- Databases of gene interactions (String, etc.).
- Gene ontology and pathway analysis.
- Strategies for determining whether a pathway is over-represented in a set of genes (Fisher exact t-test, methods based on gene lists).
Systems biology
- Introduction to Systems Biology Markup Language (SBML).
- Repositories of pathway models.
- Determining model parameters from the literature.
- Stability analysis of ordinary differential equations (ODE) models (Jacobians).
Relevant learning outcomes
| # | Outcome |
|---|---|
| # 1 | Outcome Critically evaluate the literature and bioinformatic resources to identify biological pathways in which a gene(s) could participate. |