genePI - Gene promoter identification system

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genePI is a classification system based on internal DNA properties that does not use any promoter- specific motif data. For its development, a support vector machine classifier was trained and tested using feature vectors based on predicted DNA properties, nucleotide content, sequence complexity and repeat data. The tool has been designed for detection of promoter regions, and does not give exact positions of TSSs.

We currently provide genePI predictions on the ENCODE regions as .gff files. Download

If you wish to generate your own predictions, please read carefully the input instructions! The default region length is 600bp, longer regions are scanned in 200bp steps. genePI currently provides raw classifier values, which are either positive (promoter regions) or negative (non-promoter regions). For a higher specificity, a threshold >=0.4 is recommended! Read more about genePI.

INPUT instructions:

• Format: FASTA (Sequences must contain an identifier!)
• Sequence length: minimum 600bp
• Maximum file size: 10Mb (Files >10Kb will be queued, please submit a valid email address!)
• Unmasked sequences! (Sequences containting other characters than A,C,T,G will not be processed!)
• Input example: input.txt

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