Team:NYC Software/Deinococcus/Data

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• Introduction
  • Home
  • Meet the Team
• Deinococcus
  • The Deino Genera
  • Genome Sequencing
  • Data
• Tools
  • Primer Design
  • BLAST Tool
• Human Practices
  • Maker Faire
  • Safety
• Future applications
  • Bioremediation
  • Colonization of Mars
• Notebook
  • Summary
  • Protocols
  • Attributions
• Our Partners
  • Sponsors
  • NYC Wetware
  • iGEM Teams

Genome Analysis

While waiting for the sequencing data from our libraries, we started working with the 5 already sequenced genomes in the family. Because we are most interested in finding potential radiation-resistant genes to help support the NYC_Wetware Team's data, we wanted to build a pipeline capable of predicting genes in the species, comparing those genes to find the most similar ones and then characterizing their relationships by probing radiation-resistance pathways for unique conservation.

To identify the most related genes, we predicted genes with Glimmer3 and then aligned those reads to the Deinococcus radiodurans genome. For each CDS in the D. rad genome, a number of related genes from the various species is aligned. At the time of the wiki freeze we have alignment files detailing these sequence relationships and are working toward adding biological pathway information. .