To obtain the following files, please click over the appropiate link:

• ABS GFF version
This is a flat file that contains the 650 annotated transcription factor binding sites in ABS. For further information about GFF format, follow this link.


• Promoter sequences (FASTA)
This is a directory that contains the promoter sequences (500 bps) in which the ABS binding sites have been mapped. More information about the curation of the promoters can be found in the section 5.2. ANNOTATION PROCEDURE.


• JASPAR predictions
This is a directory that contains the computational predictions on each promoter of the ABS database. More information about the computation and the output can be found in the section 5.3. PREDICTIONS. For further information about the JASPAR database, follow this link


• PROMO predictions
This is a directory that contains the computational predictions on each promoter of the ABS database. More information about the computation and the output can be found in the section 5.3. PREDICTIONS. For further information about the PROMO database, follow this link


• TRANSFAC predictions
This is a directory that contains the computational predictions on each promoter of the ABS database. More information about the computation and the output can be found in the section 5.3. PREDICTIONS. For further information about the TRANSFAC database, follow this link


• Promoter global alignments
This is a directory that contains the global multiple alignment with CLUSTALW of the orthologous promoters of each entry in the ABS database. More information about the alignments can be found in the section 5.4. ALIGNMENTS.


• Promoter local alignments
This is a directory that contains the local pairwise alignment with BLASTN of the first two orthologous promoters of each entry in the ABS database. More information about the alignments can be found in the section 5.4. ALIGNMENTS.


• AVID alignments
This is a directory that contains the alignments performed with AVID of the first two orthologous promoters of each entry in the ABS database. More information about the alignments can be found in the section 5.4. ALIGNMENTS.


• LAGAN alignments
This is a directory that contains the alignments performed with LAGAN of the first two orthologous promoters of each entry in the ABS database. More information about the alignments can be found in the section 5.4. ALIGNMENTS.


• Constructor tool (Perl)
This is a PERL script which implements the constructor of benchmarcks based on planting real motifs from the ABS database in artificial sequences. More information about the constructor aplication can be found here.


• Evaluator tool (Perl)
This is a PERL script which implements the evaluator of accuracy of a list of predictions in a set of related sequences. More information about the evaluator program can be found here.


CopyRight © 2005

ABS is under GNU General Public License.