About 1500 new FSTs have been submitted to EBI/ENA and GenBank (HG967694 to HG969186), and the corresponding data are also available from SimpleSearch (see DB version info for details). In addition to these FSTs, which are for GABI-Kat lines, we have submitted 40 FSTs for SALK lines (HG967654 to HG967693). The SALK FSTs were produced in the context of the former project GABI-DUPLO. Further information on SALK lines, which were confirmed for the GABI-DUPLO project is available here.

Since quite some time we worked on updating all datasets in SimpleSearch to transfer them to TAIRv10. Although this was already done for FSTs and new wet-lab data in 2011, the update of older confirmation data was not complete because manual interaction with the data to be updated was often required. Now we completed the update of all confirmation data that were generated in GABI-Kat since 2001. Our recent efforts allow a more precise determination of the exact insertion sites in our lines based upon the confirmation sequences (instead based upon FSTs only) as well as a complete representation of the data in our visualisation tool.

A new tool for design of primers has been implemented into SimpleSearch. It allows to design primers at any nucleotide position on A. thaliana pseudochromosomes. The primer selection procedures used by the tool are those used at GABI-Kat for designing gene-specific confirmation primers. These procedures have been optimised over years to contribute to improved confirmation rates. The tool can be accessed through the SimpleSearch menu entry GK Primertool and is currently in the beta state. Minor adjustments may be implemented in the next days. The tool aims to design primers that have as few as possible misannealing sites in the genome, and it is capable of working in paralogous regions of the genome.

The presently running GABI-Kat grant from PtJ/BMBF (German Ministry of Education and Research) has been extended until 2014-12-31. We may be able to submit an extension proposal to continue the service to the community, but it seems that the chances for a positive decision about such a proposal are very low.

We adjusted the gene search function in SimpleSearch. After confirmation of requested insertions, the FST-based insertion position is corrected according to the confirmation sequences in our database. Due to this correction the affected gene might change. In our visualisation tool this is illustrated by dark blue and light blue triangles. You might want to check the example 011F01, where the gene code has changed from At5g05170 to At5g05180. The gene search function was able to find the FST-based prediction, only. Now it is also possible to find the corrected and more accurate position, when the gene code of the insertion position has changed.

The analysis of groups of FSTs in the SimpleSearch db has shown that in rare cases the insertion site predictions in selected lines was incorrect. In such cases we removed the respective FSTs from SimpleSearch. Consequentially the data integrity in SimpleSearch could be improved through this procedure. Yet, it is possible that using the search form delivers different/less results than before. Such differences should be very rare, though. You might want to check the help page for more information on possible error messages.

The bank account at WestLB, which has been used for the reimbursement for the delivery of GABI-Kat seeds should not be used anymore. We ask our users to use the new bank account at the Landesbank Hessen-Thüringen, instead. Details can be found in the Download area. The document "Notes of ordering lines and supplier info" has been updated.

We implemented a Google-Scholar profile of GABI-Kat. In this profile the most frequently cited publications of GABI-Kat are outlined. These publications are linked to the citing papers within Google-Scholar.