GabiPD: The GABI Primary Database

New web services available for GabiPD (30-AUG-10)

Mon, 30 Aug 2010 00:00:00 GMT

•Three new web services are available in GabiPD. These can be accessed by the BioMoby Dashboard, the Taverna client, by a selfmade Perl/Java client or on the command line.
• More infomration in our WebServices project page.

About 30.000 GSS sequences from sugar beet are publicly available (01-AUG-10)

Sun, 01 Aug 2010 00:00:00 GMT

• These 30.022 GSS (BAC ends) from the sugar beet DH line KWS2320 were generated in the GABI-BPM project and are publicly available via GabiPD and GenBank.
• Please find the data via GreenCards searching for "IGS-SCF-0106*".

Merged Arabidopsis SNPs downloadable (13-JUL-10)

Tue, 13 Jul 2010 00:00:00 GMT

•Merged SNP data from three genome-wide natural variation studies in A. thaliana (Nordborg et al., 2005; Clark et al., 2007; Ossowski et al., 2008) are now downloadable.
•A related GabiPD publication on the influence of these SNPs on Arabidopsis thaliana phosphorylation patterns appeared recently in BMC Genomics (Riano-Pachon et al., 2010)
Download SNPs

Genome annotation for Poplar (black cottonwood) integrated in GabiPD (12-JUL-10)

Mon, 12 Jul 2010 00:00:00 GMT

•Populus trichocarpa genome annotation v2.0 from Phytozome v5.0 was integrated into GabiPD, including gene structures, and protein domains.
•Please find the data via GreenCards with the keyword "POPTR*".
•Gene structures and domains are visualized in the cDNA display of every Gene GreenCard.
View example
•Orthologous protein coding genes where identified, using InParanoid v4.1, between Chlamydomonas reinhardtii (JGI 3.1), Rice (MSU 6.1), Arabidopsis (TAIR9.0) and Poplar (Phytozome2.0)

About 30.000 GSS sequences from sugar beet are available (03-MAY-10)

Mon, 03 May 2010 00:00:00 GMT

• These 30.022 GSS (BAC ends) from the sugar beet DH line KWS2320 were generated in the GABI-BPM project and are exclusively available for all WPG-participants.
• Please find the data via GreenCards searching for "IGS-SCF-0106*".

BLAST searches for all GabiPD sequences against GenBank (23-APR-10)

Fri, 23 Apr 2010 00:00:00 GMT

•All sequences in GabiPD have been similarity-based mapped to GenBank sequences. Results are available through GreenCards.