Annotate-a-genome

From QiuLab
Revision as of 20:38, 13 February 2014 by imported>Weigang (→‎Download genome sequences from GenBank)
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Project Goals

  • Annotate and add newly sequenced Borrelia genomes to BorreliaBase
  • Build an informatics pipeline for gene prediction, ortholog calls, databasing, and synteny analysis

Download genome sequences from GenBank

Strain Species Group Genome Sequences Notes
B31 B. burgdorferi (reference genome) Lyme Disease Example
CA382 B. burgdorferi (California) Lyme Disease Example
CA8 B. burgdorferi (California) Lyme Disease Example
BgVir B. garinii (Russia) Lyme Disease Example
NMJW1 B. garinii (China) Lyme Disease Example
HLJ01 B. afzelii (China) Lyme Disease Example
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Protocol

  1. Predict genes with Glimmer if necessary
  2. Predict orthologs with reciprocal BLAST
  3. Load into database
  4. Visualize results using synteny browser
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