Welcome to PhosphoGRID

PhosphoGRID is an online database of experimentally verified in vivo protein phosphorylation sites in the model eukaryotic organism Saccharomyces cerevisisae. The database includes results from both high throughput (HTP) MS proteomics studies in addition to phosphosites identified in low throughput (LTP) studies of individual proteins or protein complexes. The identity of specific protein kinases and phosphatases shown to regulate appearance of phosphorylations are recorded, where available, as are the function(s) of the phosphorylation, and conditions under which the modification was demonstrated to occur. The PhosphoGRID curators would appreciate comments on omissions and errors, as well as notifications of newly published or submitted data.

This work was supported by:

  • Canadian Institutes of Health Research grant (MOP-77807 - to I.S.)
  • Canadian Cancer Society Research Institute Grant (0011258 to I.S.)
  • Canadian Institutes of Health Research grant (GSP-36651 to M.T.)
  • NIH National Center for Research Resources Grant (1R01RR024031-01 to M.T. and K.D.)


Latest News

BioGRID Version 3.4.126 Released

July 1, 2015 - 7:58 pm

The BioGRID‘s curated set of physical and genetic interactions has been updated to include interactions, chemical associations, and post-translational modifications (PTM) from 54,430 publications. These additions bring our total number of non-redundant interactions to 576,636, raw interactions to 788,169, non-redundant chemical associations to 11,329, raw chemical associations to 27,034, Unique PTM Sites to 19,981, and Un-Assigned PTMs to 18,578. New curated data will be added in curation updates on a monthly basis. For a more comprehensive breakdown of our numbers, check out our latest interaction statistics. To download these data, visit our download page.

Migration of Post-Translational Modifications to Improved Viewer from Interaction Format

June 1, 2015 - 4:45 am

BioGRID has made improvements to the post-translational modification (PTM) viewer in order to introduce new features, in particular to display PTMs that have not been mapped to a specific site in the protein. With these improvements, we have also completed an extensive project to migrate 57,819 PTMs from interaction records and into the PTM viewer for the BioGRID 3.4.125 release. Notably, for the covalent protein modifier ubiquitin, 49,425 covalent PTMs were previously housed as protein interaction records in BioGRID and demarcated in the associated notes as “likely ubiquitin conjugate”. The segregation of covalent protein modification records from non-covalent protein interaction records allows a precise distinction between the two types of interaction, and reduces the dominance of ubiquitin as a super-hub in protein interaction networks. Non-covalent interactions between ubiquitin and components of the ubiquitin-proteasome system are still retained as interaction records. All post-translational modifications for any given query protein can now be viewed on the associated PTM summary page (Examples: TP53, RELA, DIG1, SUMO1). For a complete list of protein interaction records affected by these changes, please see the BioGRID download page [Interactions Migrated to PTM Viewer (excel file)].

If you have questions, comments or suggestions regarding this release please feel free to contact us at any time.

The BioGRID Team

BioGRID Version 3.4.125 Released

June 1, 2015 - 3:25 am

The BioGRID‘s curated set of physical and genetic interactions has been updated to include interactions, chemical associations, and post-translational modifications (PTM) from 54,200 publications. These additions bring our total number of non-redundant interactions to 557,106, raw interactions to 771,245, non-redundant chemical associations to 11,329, raw chemical associations to 27,034, Unique PTM Sites to 19,981, and Un-Assigned PTMs to 18,578. New curated data will be added in curation updates on a monthly basis. For a more comprehensive breakdown of our numbers, check out our latest interaction statistics. To download these data, visit our download page.

BioGRID 3.4 – Now Live

May 31, 2015 - 8:03 pm

The BioGRID was updated today to our newest release designated BioGRID 3.4. This update includes several bug fixes and user interface improvements as well as some new features. The following is a short list of some of the changes:

  • Improved Post-Translational Modification View. We have made many changes to our post-translational modification (PTM) view in order to become more user-friendly and to better support non-assigned PTMs and PTMs assigned to isoform proteins. If available, these will be accessible via the “PTM Sites” tab in the “Switch View” section of our interaction summaries. Examples: STE11, TP53, NEDD8, STE20, and Breitkreutz A (2010) et al. (PUB:20489023).
  • New Individual Interaction View. As requested by many users, you can now link to individual interaction pages within the BioGRID. These pages list all of the details for a single interaction and can be reached using a URL structure of http://thebiogrid.org/interaction/[interaction id]. The following are a few examples: STE11-STE50, DAD1-FUS1, TP53-MDM2, and PTC-BABO.
  • Improved Source Database Attribution. All interactions now prominently display a “Curated By” reference indicating the source database responsible for originally curating the interaction from the literature. This attribution has been available since the beginning, but was displayed via a tooltip. Interactions not originally curated by the BioGRID will now link directly to the original source without requiring a visit to the tooltip. Example: Bazooka.
  • More Statistics. On our statistics page we have included (in addition to our physical and genetic interaction statistics) new tables displaying chemical association statistics and post translational modification statistics for the current BioGRID release.
  • Graphical User Interface Updates. We’ve made several user interface updates to improve the functionality of the BioGRID and to reduce page load times.
  • Download File Improvements. We’ve fixed several issues with our download files to improve compatibility with standards. In addition, we’ve also included a new download file format for Chemical Associations. This file can be downloaded via our downloads page. For more information on this new format, visit our Help Wiki.
  • Updated Wiki Documentation. We’ve updated several pages in our Wiki to provide updated documentation on a variety of topics.

These are just some of the many improvements now available in BioGRID 3.4. We have many additional features already under development for version 3.5 that will expand on this functionality and ensure the BioGRID remains a useful resource for the biological community. If you have any questions about this build or suggestions for future builds, please feel free to contact us at biogridadmin@gmail.com.

BioGRID Version 3.3.124 Release (2,585 New Physical and Genetic Interactions Added)

May 1, 2015 - 9:17 am

The BioGRID‘s curated set of physical and genetic interactions has been updated to include an additional 2,585 interactions from 44,978 publications. These additions bring our total number of non-redundant interactions to 574,378 and raw interactions to 826,051. New interactions will be added in curation updates on a monthly basis. For a more comprehensive breakdown of our numbers, check out our latest interaction statistics. To download these interactions, visit our download page.

BioGRID Version 3.3.123 Release (577 New Physical and Genetic Interactions Added)

April 1, 2015 - 8:07 am

The BioGRID‘s curated set of physical and genetic interactions has been updated to include an additional 577 interactions from 44,772 publications. These additions bring our total number of non-redundant interactions to 572,682 and raw interactions to 823,466. New interactions will be added in curation updates on a monthly basis. For a more comprehensive breakdown of our numbers, check out our latest interaction statistics. To download these interactions, visit our download page.

BioGRID 3.3 – Now Live

March 1, 2015 - 4:40 pm

The BioGRID was updated today to our newest release designated BioGRID 3.3. This update includes several bug fixes and user interface improvements as well as some new features. The following is a short list of some of the changes:

  • Support for Chemical Associations. Our result pages may now include listings of protein-chemical associations. If available, these will be accessible via the “Chemicals” tab in the “Switch View” section of our interaction summaries. Examples: SULT1E1, MAPT, GABRB1, FOL1, and PUB:17139284.
  • Enhanced Network Viewer 2.0. Our result pages may now include an enhanced version of our embedded network viewer that leverages the powerful Cytoscape.js platform to display interactive graph based representations of our interaction data. These networks include many powerful new features such as on-the-fly filtering, custom layouts, and minimum evidence thresholds. Examples: PEX7, MDM2, GABRB1, and SINA. A quick tutorial outlining the basic features of the viewer is available online.
  • Detailed Search Result Listings. All gene/identifier based search results were updated to include detailed breakdowns of interactors, interactions, ptms, and chemicals that will be displayed when selecting that result. Example: STE.
  • Graphical User Interface Updates. We’ve made several user interface updates to improve the functionality of the BioGRID and to reduce page load times.
  • Search Improvements. We’ve made several enhancements to improve the speed and accuracy of our search results.
  • Download File Improvements. We’ve fixed several issues with our download files to improve compatibility with standards. In addition, we’ve also included two new download file formats for Multi-Validated interactions and for Post-Translational Modifications. These can be downloaded via our downloads page.
  • Updated Wiki Documentation. We’ve updated several pages in our Wiki to provide updated documentation on a variety of topics.
  • Improved REST Webservice. We’ve made several enhancements to the BioGRID REST webservice to improve performance and increase accuracy of results.

These are just some of the many improvements now available in BioGRID 3.3. We have many additional features already under development for version 3.4 that will expand on this functionality and ensure the BioGRID remains a useful resource for the biological community. If you have any questions about this build or suggestions for future builds, please feel free to contact us at biogridadmin@gmail.com.

BioGRID Version 3.3.122 Release (10,400 New Physical and Genetic Interactions Added)

March 1, 2015 - 8:17 am

The BioGRID‘s curated set of physical and genetic interactions has been updated to include an additional 10,400 interactions from 44,722 publications. These additions bring our total number of non-redundant interactions to 572,420 and raw interactions to 822,889. New interactions will be added in curation updates on a monthly basis. For a more comprehensive breakdown of our numbers, check out our latest interaction statistics. To download these interactions, visit our download page.

National Institutes of HealthBiotechnology and Biological Sciences Research CouncilCanadian Institutes of Health ResearchThe University of EdinburghPrinceton UniversitySamuel Lunenfeld Research InstituteSaccharomyces Genome DatabaseFlybaseGeneDBNational Center for Biotechnology InformationHuman Protein Reference DatabaseWormbaseGene OntologyThe International Molecular Exchange ConsortiumDatabase of Interacting ProteinsIntACTMolecular Interaction DatabaseProteomics Standards InitiativeReactomeCytoscapeOsprey Network Visualization SystemPathway Commons