Flymine version 18.0 released.

[Rachel Lyne]

We have released version 18.0 of FlyMine (www.flymine.org)

In this release data from FlyBase has been updated to release
FB2009_06 and orthologue data from TreeFam (www.treefam.org) has been
added.  FlyMine now includes orthologue data from both TreeFam and
Inparanoid (http://inparanoid.sbc.su.se/cgi-bin/index.cgi) - see below
for some example template queries which allow you to choose which of
these datasources you want to use.  In addition, orthologues between
/D. melanogaster/ and other /Drosophila/ species now come directly from
FlyBase (gene_orthologs_fb_2009_06.tsv.gz) rather than the original
Clark-Eisen analysis (PMID: 17994087) - see below for a template query
to access this data.  Many other data sources have been updated to the
latest versions.

For a list of all changes see
http://blog.flymine.org/2009/07/20/release-18-0/
For a full list of data sources see
www.flymine.org/release-18.0/dataCategories.do
For all types of help and feedback email support@...


Accessing orthologue data in FlyMine:


The following templates allow you to search for orthologues and
paralogues generated by either Inparanoid or TreeFam:

Show the predicted orthologues and paralogues between two organisms:
http://www.flymine.org/release-18.0/template.do?name=GeneOrganism1_HomologuesOrganism2&scope=all

For a specified gene, show all predicted orthologues and paralogues:
http://www.flymine.org/release-18.0/template.do?name=Gene_Homologues&scope=all


To search for orthologues between /D. melanogaster/ and the other
/Drosophila/ species use the following template:
http://www.flymine.org/release-18.0/template.do?name=Gene_DrosophilaOrthologues&scope=all


Further templates are available on the FlyMine website.



The FlyMine Team


- About FlyMine -
FlyMine is an integrated database of genomic, expression and protein
data from Drosophila, Anopheles and C. elegans.  As an integrated
resource it is possible to run data mining queries that span domains of
biological knowledge. FlyMine is a freely available resource.
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