The EPipe 0.982 server performs comparative analysis of protein sequences derived from the same transcript by alternative splicing, genome variation data (SNPs) or protein families from one or more organisms. The analysis is automated: the input proteins are first processed by a number of analysis and prediction methods, the results are then remapped onto a multiple alignment and compared. All the differences found between the variants are reported in detail. It is also possible to view the complete analysis and prediction results.
NOTE 1: This service is under development; new analysis and prediction methods are being added, the output format is being refined etc. As many external tools are called special attention is given to the overall speed of the service. Documentation is in preparation.
NOTE 2: EPipe is dependent on a number of other programs that have to be run on the input sequences prior to the comparative analysis. Therefore, the processing of multiple sequences may be time-consuming. In the case of prolonged wait the user is advised to use the e-mail option: at any time during the wait you may enter your e-mail address and simply leave the window. Your job will continue; you will be notified by e-mail when it has terminated. The e-mail message will contain the URL under which the results are stored; they will remain on the server for 24 hours for you to collect them.
For publication of results, please cite:
Protein annotation in the era of personal genomics.
Blicher T, Gupta R, Wesolowska A, Jensen LJ, Brunak S.
Curr Opin Struct Biol., 20:335-41, 2010.
EPipe 1.0: a pipeline for discovery of functional differences
in proteins originating from alternative splicing, pan-genome
variation or protein family evolution.
In preparation by several groups from the BioSapiens Network of
The pipeline also relates to the work described in:
The implications of alternative splicing in the
ENCODE protein complement.
Tress, ML et al.
Proc Natl Acad Sci U S A, 104:5495-5000, 2007.