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searching for unpublished GO-Annotated sequences for application-valuation
zehetner at molgen.mpg.de
zehetner at molgen.mpg.de
Tue Mar 15 06:08:31 PST 2005
I have developed an annotation prediction system which is based on a modified
OntoBlast tool (OntoBlast function: from sequence similarities directly to
potential functional annotations by ontology terms, Nucleic Acids Research,
2003, Vol. 31, No. 13, pp 3799-3803) and a prototype implementation for malaria
species (Anopheles and Plasmodium) can be found at http://malariabase.org/
This predicts many not yet available functional annotations (using GO terms) for
genes from these species. Although they are not manually but computationally
derived, those with low weighting numbers (< 1.0e-100) are in general very
reliable. You are welcome to use them to evaluate your system if you wish.
If you have any questions please let me know.
MPI for Molecular Genetics, Berlin
Quoting Stefan Goetz <goetz_stefan at gmx.de>:
> Hello everybody,
> we are developing a new GO-Tool which includes gene function
> prediction/annotation based on sequence similarities. The evaluation of
> prediction power involves the comparison of our annotation resutls with
> manually annotated data.
> For this purpose we would like to use a set of manually GO annotated
> sequences (nuclein/protein) not yet included in public databases (e.g.
> NR from NCBI). By this we try to minmize the problem that the sequences
> of the test-set may have influenced the IEA annotation of the sequences
> in the search set. We want to stress that our interest is merely the
> validation of our tool and not the specific biological meaning of a
> particular data set, and that we would treat confidentially any
> unpublished data.
> We will be very pleased if someone could supply as with such kind of
> Regards, Stefan Götz
> IVIA - BET
> Universidad Politecnica de Valencia
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