Reference websites
Several tools and resources are available through our collaborators:
I2D
Interologous Interaction Database (I2D) is an on-line database of known and predicted mammalian and eukaryotic protein-protein interactions.
http://ophid.utoronto.ca/i2d
CDIP
Cancer Data Integration Portal
http://ophid.utoronto.ca/cdip
mirDIP
microRNA Data Integration Portal
http://ophid.utoronto.ca/mirDIP
NAViGaTOR
Network Analysis, Visualization, & Graphing TORonto(NAViGaTOR) is a software package for visualizing and analyzing protein-protein interaction networks.
http://ophid.utoronto.ca/navigator
NetwoRx
Drug Network Portal
http://ophid.utoronto.ca/networx
SCRIPDB
Syntheses, Chemicals, and Reactions In Patents Database
http://dcv.uhnres.utoronto.ca/SCRIPDB/search
IMEx
The IMEx consortium is an international collaboration between a group of major public interaction data providers who have agreed to share curation effort.
http://www.imexconsortium.org/
GeneSigDB
The Gene Signature DataBase is a searchable database of fully traceable, standardized, annotated gene signatures which have been manually curated from publications that are indexed in PubMed.
http://compbio.dfci.harvard.edu/genesigdb/
GeneCards
GeneCards is a searchable, integrated, database of human genes that provides concise genomic, transcriptomic, genetic, proteomic, functional and disease related information on all known and predicted human genes.
http://www.genecards.org/
GeneMANIA
GeneMANIA finds other genes that are related to a set of input genes, using a very large set of functional association data that includes protein and genetic interactions, pathways, co-expression, co-localization and protein domain similarity.
http://genemania.org
Cytoscape
Cytoscape is an open source bioinformatics software platform for visualizing molecular interaction networks and integrating these interactions with gene expression profiles and other state data.
http://www.cytoscape.org
Human Protein Atlas
The human protein atlas shows expression and localization of proteins in a large variety of normal human tissues, cancer cells and cell lines with the aid of immunohistochemistry (IHC) images and immunofluorescence (IF) confocal microscopy images.
http://www.proteinatlas.org
REACTOME
Reactome is a free, online, open-source, curated pathway database encompassing many areas of human biology. Information is authored by expert biological researchers, maintained by the Reactome editorial staff and cross-referenced to a wide range of standard biological databases.
http://www.reactome.org
Pathway Commons
Pathway Commons is a collection of publicly available pathways from multiple organisms. It provides researchers with convenient access to a comprehensive collection of pathways from multiple sources represented in a common language.
http://www.pathwaycommons.org
WikiPathways
WikiPathways is an open, public platform dedicated to the curation of biological pathways by and for the scientific community.
http://www.wikipathways.org