Issue #2 of Message in a Bottle, the SEA-PHAGES newsletter, is now available. See the 17 schools that will be joining the program in 2015-16, hear from Graham, and see who the keynote speaker at this year's Symposium will be.
Message in a Bottle, Issue 2
Written by on Feb. 23, 2015 in Message in a Bottle.
Phamerator Database Updates
Written by on Feb. 13, 2015 .
***UPDATE***
As of late 2015, all phages of Actinobacteria will be consolidated into a single Phamerator database. The server/datbase information is (case-sensitive):
Server: http://phamerator.webfactional.com/databases_Hatfull
Database: Actino_Draft
To update your copy of Phamerator to point to this new database, open Phamerator then go to Edit-->Preferences and enter the database and server above, taking care to ...
Annotation: What's new in 2014-15?
Written by on Jan. 13, 2015 .
The revised DNA Master Annotation Guide is available on PhagesDB and the sea-wiki. Below are some important revisions to note.
- The process for submitting genomes for annotation QC has changed slightly. You are asked to submit two .dnam5 files. Particular attention to functional calls is needed.
- Start-site decision-making has been modified to use the Karlin/Kaplan ...
SEA Virtual Machine 2015
Written by on Jan. 8, 2015 .
2015 VM Largely Unchanged
Because there were very few changes made in the 2015 version of the SEA Virtual Machine, we decided not to request that all schools replace their 2014 VMs with the 2015 one. If you've got the 2014 VM installed, you'll have no trouble running Phamerator, AceUtil, Newbler, consed, etc., and do ...
Sequencing Status 2014-15
Written by on Jan. 6, 2015 .
2014 In Silico Workshop
Written by on Dec. 16, 2014 .
If you are interested in the In Silico Workshop materials you can find them at PhagesDB.
To all the participants, may we commend you on a job well done!!! The GenBank Accession number for Mycobacteriophage Sheen is KP273225!
"Life in Our Phage World"
Written by on Dec. 12, 2014 .
Check out this new book (and free pdf) about phages. It may just be the ticket for that quirky, informative approach to phage background you are looking for!
From the 2015phage.org website: "To celebrate a century of phage exploration, we invite you to get intimate with 30 diverse phages in this premier phage field guide. ...
Signals app and website
Written by on Dec. 8, 2014 .
So that you can share the fun you're having in the micro and computer labs with everyone in SEA-PHAGES, we bring you Signals. Learn more by watching this fabulous infomercial.
If you're on an Android phone or tablet, you can get Signals in the Google Play Store now. We're working on a version for ...
Want to see what's new in In Silico?
Written by on Dec. 3, 2014 .
The 2014 In Silico Workshop is next week! I can't believe it is that time again. We are looking forward to working with all of our attendees, both new and returning faculty.
As usual, we will have a few new items this year (a new program! Introducing Starterator! Already installed on the 2015SEA VM!) as ...
Sequencing at NC State
Written by on Nov. 18, 2014 .
For anyone looking for some extra phage genome sequencing, the Genomics Sciences Laboratory at NC State is offering affordable Illumina runs again this year. Jenn Schaff is the contact person there, and she says:
For those of you who didn't qualify for the free sequencing and still have extra phages to sequence before 2015 Spring ...