The GRID: The General Repository for Interaction Datasets

By Bobby-Joe Breitkreutz, Chris Stark, Mike Tyers. Genome Biology, 2003

326 citations recorded by the source corpus.

We have developed a relational database, called the General Repository for Interaction Datasets (The GRID; http://biodata.mshri.on.ca/grid) to archive and display physical, genetic and functional interactions. The GRID displays data-rich interaction tables for any protein of interest, combines literature-derived and high throughput interaction datasets, and is readily accessible via the World Wide Web. Interactions parsed in the GRID can be viewed in graphical form with a versatile visualization tool called Osprey.

Subfields: Molecular Biology, Spectroscopy

View Paper: https://www.semanticscholar.org/paper/b8102779e7ffd136d048857aa03e4434016dda0c

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Citations in the corpus

Evaluation of clustering algorithms for protein-protein interaction networks (2006, methodology): “To this end, we downloaded from the GRID database [39] six data sets representing the network of protein interactions in the yeast Saccharomyces cerevisiae.”
Why Do Hubs Tend to Be Essential in Protein Networks? (2006, unknown): “To examine whether our results are similar when different yeast PPI datasets are used, we tried two other datasets, one with many more nodes and edges [24] and the other with much fewer nodes and edges [21].”
Pairwise Global Alignment of Protein Interaction Networks by Matching Neighborhood Topology (2007, methodology): “The PPI network data for the species was retrieved from the GRID [4] and DIP [7] databases, and the sequence data was retrieved from Ensembl [2].”
The BioGRID interaction database: 2017 update (2016, background): “The Biological General Repository for Interaction Datasets (BioGRID: https://thebiogrid.org) was originally implemented in 2003 (16) to provide open access to high-throughput (HTP) interaction datasets (1–3), and subsequently to augment and benchmark HTP data with interactions drawn from focused…”
Protein interaction networks from yeast to human. (2004, background): “[9–12]) and increasingly becoming warehouses for large-scale assay data, while novel databases continue to be developed [13].”
FlyBase: genes and gene models (2004, background): “The databases currently listed in this section include; the BDGP In Situ Gene Expression Database (10), Drosophila melanogaster Exon Database (http://proline.bic.nus.edu.sg/dedb), PANTHER Protein Classification (11,12), Fly GRID Interaction Data (13), Hybrigenics PIMRider interactions (14), Interact”
BioGRID: a general repository for interaction datasets (2005, background): “The ﬁrst public release of BioGRID (version 1.0; July 2002; then termed GRID) housed HTP two-hybrid and mass spectrometric protein interaction data generated from the budding yeast Saccharomyces cerevisiae (13).”
Whole-proteome prediction of protein function via graph-theoretic analysis of interaction maps (2005, methodology): “We also consider augmenting the interaction network by considering genetic interactions from GRID (Breitkreutz et al., 2003).”
Modeling cellular machinery through biological network comparison (2006, unknown): “and General Repository for Interaction Datasets (GRID”
The BioGRID interaction database: 2019 update (2018, background): “org) was first developed as an open-access centralized repository for protein and genetic interaction data reported in the biomedical literature (18).”
Computational tools for prioritizing candidate genes: boosting disease gene discovery (2012, background): “The network can either be a true PPI network (such as BioGrid 77 ) or an integrative (functional linkage) network 78 (such as STRING 79 ).”
Analysis of global control of Escherichia coli carbohydrate uptake (2007, unknown): “To illustrate our results, we computed network concepts in module networks based on Drosophila and yeast protein-protein interaction (PPI) networks downloaded from BioGrid [31].”