All entries for October 2008

October 30, 2008

JGI Genome Portal Tutorial Site

Andy Bailey has kindly drawn my attention to the online JGI annotation tutorial:

JGItutorial

http://genome.jgi-psf.org/Tutorial/Tutorial.home.html

http://genome.jgi-psf.org/help/

As our Agaricus bisporus sequencing project progresses, and with the promise of 4x sequence in Q1-2009, this is a probably a good time for genome novices (like myself) to get familiar with the JGI tools. 

Other JGI-led training should take place as the project advances.


October 13, 2008

EST data sets sent to JGI

Agaricus bisporus Genome Sequencing - Project updates


[29 Sept 2008] 

Warwick sequence database (ca 1700 seqs) sent to the JGI, these comprise

1-813 EMBL nucleotide database sequences related to Agaricus bisporus

814-1066 miscellaneous cDNA library sequences

1067-1513 SSH differential expression during mushroom development (vegetative mycelium to initials)

1517-1592 SSH infection (fungal pathogen) response genes

1592-1773 SSH infection (viral) response genes


[13 Oct 2008] 

Many thanks to Dr. Jurriaan J. Mes (Agrotechnology and Food Sciences, Group Wageningen UR) who has kindly provided an additional data set of ca 1200 SSH sequences


PLEASE NOTE - There is still time to include additional data sets - interested parties with suitable data should contact me at their earliest convenience


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