This article is part of the supplement: Proceedings of the European Conference on Computational Biology (ECCB) 2008 Workshop: Annotations, interpretation and management of mutations (AIMM)
Research
From SNPs to pathways: integration of functional effect of sequence variations on models of cell signalling pathways
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* Corresponding author: Laura I Furlong lfurlong@imim.es
Research Unit on Biomedical Informatics (GRIB), IMIM-Hospital del Mar, Universitat Pompeu Fabra. Barcelona Biomedical Research Park (PRBB) C/Dr. Aiguader, 88, 08003. Barcelona, Spain
BMC Bioinformatics 2009, 10(Suppl 8):S6 doi:10.1186/1471-2105-10-S8-S6
Published: 27 August 2009Additional files
Additional file 1:
Glossary and identifiers and names of proteins used in the study.
Format: PDF Size: 43KB Download file
This file can be viewed with: Adobe Acrobat Reader
Additional file 2:
BioPAX file of Signaling by EGFR pathway from Reactome.
Format: OWL Size: 1005KB Download file
Additional file 3:
SBML file containing the original model of ErbB signaling by [35], slightly modified to be imported to Cytoscape.
Format: XML Size: 185KB Download file
Additional file 4:
Cytoscape node attribute file containing the mapping of the nodes in ErbB_signaling (SBML) to UniProt identifiers.
Format: ATTR Size: 1KB Download file
Additional file 5:
Cytoscape node attribute file only containing information about mutations.
Format: ATTR Size: 816KB Download file
Additional file 6:
Cytoscape node attribute file containing only information about polymorphism.
Format: ATTR Size: 3.4MB Download file
Additional file 7:
Cytoscape node attribute file containing information about mutagenesis and polymorphisms.
Format: ATTR Size: 4.4MB Download file
Additional file 10:
Guide to map SNP data onto biological networks (brief tutorial on how to use the files).
Format: PDF Size: 71KB Download file
This file can be viewed with: Adobe Acrobat Reader
Additional file 11:
Example Cytoscape session where the EGFR signalling pathway from Reactome in BioPAX format, as well as the network model in SBML format are imported and visualized with the mutagenesis and polymorphism data
Format: CYS Size: 310KB Download file
Additional file 12:
SBML model of ErbB signalling, in which MEKstar is inactivated.
Format: XML Size: 185KB Download file