Online Tools and Resources
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tools [2018/03/17 15:17] biogridadmin [Network Visualization] |
tools [2019/03/01 00:36] biogridadmin [Network Visualization] |
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| * **[[https://phosphogrid.org|PhosphoGRID]]** - PhosphoGRID records the positions of more than 5000 specific phosphorylated residues on 1495 gene products in Saccharomyces cerevisiae. Each site is documented with a hierarchy of experimental evidence codes. | * **[[https://phosphogrid.org|PhosphoGRID]]** - PhosphoGRID records the positions of more than 5000 specific phosphorylated residues on 1495 gene products in Saccharomyces cerevisiae. Each site is documented with a hierarchy of experimental evidence codes. | ||
| * **[[https://yeastkinome.org|Yeast Kinome]]** - Saccharomyces cerevisiae Kinase and Phosphatase Interactome (KPI) Resource. | * **[[https://yeastkinome.org|Yeast Kinome]]** - Saccharomyces cerevisiae Kinase and Phosphatase Interactome (KPI) Resource. | ||
| - | * **[[http://www.pathwaycommons.org/pc/home.do|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. | + | * **[[https://www.pathwaycommons.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://wodaklab.org/iRefWeb|iRefWeb]]** - The iRefWeb interface groups interaction records from the different databases into a single non-redundant view. | * **[[http://wodaklab.org/iRefWeb|iRefWeb]]** - The iRefWeb interface groups interaction records from the different databases into a single non-redundant view. | ||
| - | ===== Network Visualization ===== | + | ===== Visualization ===== |
| * **[[https://osprey.thebiogrid.org|Osprey: Network Visualization System]]** - Osprey is a software platform for the visualization of complex interaction networks. Osprey builds data-rich graphical representations from Gene Ontology (GO) annotated interaction data maintained by the BioGRID. | * **[[https://osprey.thebiogrid.org|Osprey: Network Visualization System]]** - Osprey is a software platform for the visualization of complex interaction networks. Osprey builds data-rich graphical representations from Gene Ontology (GO) annotated interaction data maintained by the BioGRID. | ||
| * **[[http://www.cytoscape.org/|Cytoscape]]** - Cytoscape is an open source bioinformatics software platform for visualizing molecular interaction networks and integrating these interactions with gene expression profiles. | * **[[http://www.cytoscape.org/|Cytoscape]]** - Cytoscape is an open source bioinformatics software platform for visualizing molecular interaction networks and integrating these interactions with gene expression profiles. | ||
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| * **[[biogridrest|BioGRID REST Service]]** - BioGRID interaction data is now available programatically over HTTP through a REST-style web service. | * **[[biogridrest|BioGRID REST Service]]** - BioGRID interaction data is now available programatically over HTTP through a REST-style web service. | ||
| * **[[http://code.google.com/p/psicquic/|PSICQUIC]]** - PSICQUIC is a web service that attempts to standardize access to molecular interaction databases programatically. | * **[[http://code.google.com/p/psicquic/|PSICQUIC]]** - PSICQUIC is a web service that attempts to standardize access to molecular interaction databases programatically. | ||
| + | * **[[https://chrome.google.com/webstore/detail/gene-info/jggendahejbhkghnachhlomkkheomchp?hl=en-US|Gene Info Chrome Plugin]]** - View gene information (including BioGRID interactions) by double clicking a gene name or accession on any web page. | ||