February
17
Annotation Day 1: Nubia Preparation [02/06/17 Cori Hughes]
Journal entry by Cori Hughes on the 6th of February, 2017
Goals:
- Divide Arthrophage Nubia’s total of 63 genes among eight group members for annotation work
- Download Nubia’s fasta file onto desktop
- Download Nubia’s GeneMark PDF
- Auto-annotate Nubia on DNAMaster
- Start annotation of Nubia, if time allows
Tools: DNAMaster, PhagesDB.org, GeneMark
Methods:
- The genes of Nubia is divided as follows: Alex and Pranav annotate genes 1-17, Chrissy and Caroline annotate genes 18-32, Navya and Christina annotate genes 33-48, and Roshni and I annotate genes 49-63
- Download Nubia’s fasta file onto the desktop from PhagesDB.org
- Export the fasta file to DNAMaster and start auto-annotation
- Download Nubia’s GeneMark PDF, make sure the following are selected before starting GeneMark: species Arthrobacter_aurescens_TCI, protein sequence, gene nucleotide sequence, phage, LST, and PDF
- Due to time limit, start annotation of Nubia by looking at the starts/stops/direction/gap/overlap
Results:
Conclusions: As partners, Roshni and I have started auto-annotation and will begin annotating at a moderate pace. We can tell by looking at the genes on DNAMaster that the question of editing start locations will come up. As a group, Team Nubia (the Dream Team) will be coming together once pairs have annotated their portion, and then swap those genes with other pairs for review.
Next Step: Annotation Day 2: Nubia Genes 49 and 50 [02/08/17 Cori Hughes]