Software
Ulysses - an application for the projection of molecular interactions across species
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* Corresponding author: Wyeth W Wasserman wyeth@cmmt.ubc.ca
1 Center for Genomics and Bioinformatics, Karolinska Institutet, 171 77 Stockholm, Sweden
2 Centre for Molecular Medicine and Therapeutics, University of British Columbia, Vancouver V5Z 4H4, BC, Canada
3 UBC Bioinformatics Centre, University of British Columbia, Vancouver V6T 1Z4, BC, Canada
4 Department of Medical Genetics, University of British Columbia, Vancouver, BC, Canada
5 Michael Smith Laboratories, University of British Columbia, Vancouver V6T 1Z4, BC, Canada
6 Department of Computer Science, University of British Columbia, Vancouver V6T 1Z4, BC, Canada
Genome Biology 2005, 6:R106 doi:10.1186/gb-2005-6-12-r106
Published: 2 December 2005Additional files
Additional data file 1:
Species include S. cerevisiae (Sc), C. elegans (Ce), and D. melanogaster (Dm). These candidate connections included genes linked to core biological functions. New candidate members were identified for protein degradation processes, including ubiquitin-dependent protein catabolism and protein degradation via the proteasome. Additionally, candidates were linked by interactions to the ribosome, maintenance, and nuclear export. New candidate components were linked to the highly conserved RNA polymerase complex. Finally, novel associations were predicted with membrane and vesicle-based targeting proteins. These examples illustrate the capacity of the Ulysses system to reveal starting points for the study of new complexes or to orient the exploration of new candidate members of known functional units
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Additional data file 2:
Double linkage criteria (see Table 5) revealed high confidence protein associations. Interacting partners 1 and 2 are listed with their human gene symbols and HomoloGene groups
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