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Recent Activity
Suggested Format for Documenting Synteny
| Link to this post | posted 12 Jun, 2018 02:28 | |
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I had a chance at the annual Faculty Meeting to review a genome Claire Rinehart annotated and found he had a very elegant system for recording synteny arguments. I wanted to share that with the community with the minor modification of also adding three reference phages which demonstrate the synteny in question. Simpliphy gp 36 - called as Lysin B Synteny: Lysin A (33) - Holin (34) - Lysin B (36) (MadamMonkfish (E), NoSleep (E), Ukulele (E)) The letters next to the phage names are cluster designations. I find the format elegant and informative. If Welkin and the rest of the community find it useful, we can have it added to the Bioinformatics guide. Hope this is useful! |
| Link to this post | posted 12 Jun, 2018 02:30 | |
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I realized I forgot to add one clarification: the numbers next to the gene names in the synteny indicate the phage gp designation. In this example you can surmise that there is a gene between Holin and Lysin B which is not relevant to the three genes in question. I find this more straightforward than simply noting what's directly adjacent to the gene in question. |
| Link to this post | posted 17 Jul, 2018 16:22 | |
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Thanks for sharing— I agree, that is a nice way of noting things. |