This release contains the same data as release 17  (freeze of 1st of February 2010), with the addition of 9 C. Elegans submissions from the Waterston project that did not make it to the previous release.

Release 18 contains 1031 submissions, 729 for fly and 311 for worm. 2 of the fly submissions relate to Drosophila Pseudoscura.

In this release the display of the expression levels related to a certain feature has been corrected (those were named as ‘experimental features’ in the previous release), a bug related to the association of features common to different submissions of a certain experiment has been fixed (see post) and more feature relationships and properties are now considered.

Drosophila_Cell_Lines_and_Developmental_Stages_Exon_Scores.txt
Drosophila_Cell_Lines_and_Developmental_Stages_Gene_Scores.txt

For more information, please see http://www.modencode.org/docs/flyscores.

The tables were compiled by the Bloomington group in the fly transcriptome project of modENCODE (Celniker, PI).

We also provide a Perl client API that makes it easy to run templates and create custom queries from simple Perl programs.  The download contains some sample code that will connect to modMine and run queries to, for example, fetch details of antibodies and to find modENCODE features located near to gene(s) of interest.

You can download the package at:

http://www.flymine.org/download/modmine/perlAPI

Instructions are in the file http://www.flymine.org/download/modmine/perlAPI/howToInstall

Or for an automated install, which will handle dependencies for you can use pip:

From the commandline run:

pip http://www.flymine.org/download/modmine/perlAPI/InterMine-0.02.tar.gz

Don’t forget you can install pip (the package installer for Perl) with “cpan pip”

For more information on the available positions and how to apply please see

http://www.intermine.org/wiki/NowHiring#SoftwareDevelopers-modENCODEprojectTwoposts

This release represents the data release freeze of 1st of February 2010.

Release 17 contains 1031 submissions, 729 for fly and 302 for worm. 2 of the fly submissions relate to Drosophila Pseudoscura.

There are 37 experiments in the release, and more than 43 millions of genetic features.

New incremental release with 780 submissions. 568 concern fly, 212 worm.

This release contains a snapshot of all fly and worm data for analysis (data analysis freeze). It has the same data of release 15 with the addition of 10 worm submissions (all from the Lieb project).

A bug affecting the export of data has been solved.

Under the tag modMine you can find a general overview followed by an introductory video and a general help page with more detailed subsections devoted to the analysis of fly and worm data.

Nucleic Acids Res. 2009 Dec 4. [Epub ahead of print]
Ooi SL, Henikoff JG, Henikoff S.
PMID: 19966274

The C. elegans dosage compensation complex propagates dynamically and independently of X chromosome sequence.

Curr Biol. 2009 Nov 17;19(21):1777-87. Epub 2009 Oct 22.
Ercan S, Dick LL, Lieb JD.
PMID: 19853451

New full release with 770 submissions. 568 concern fly, 202 worm.

This release contains a snapshot of all fly and worm data for analysis (data analysis freeze).

Please note that the submissions for fly of the Henikoff group have been updated respect release 14. The update has increased the number of submissions by 8.