Struct2Net: a web service to predict protein–protein interactions using a structure-based approach
Struct2Net is a web server for predicting interactions between arbitrary protein pairs using a structure-based approach. Prediction of protein–protein interactions (PPIs) is a central area of interest and successful prediction would provide leads for experiments and drug design; however, the experim...
| Main Authors: | , , , , |
|---|---|
| Other Authors: | |
| Format: | Article |
| Language: | en_US |
| Published: |
Oxford University Press (OUP)
2012
|
| Online Access: | http://hdl.handle.net/1721.1/70951 https://orcid.org/0000-0002-2724-7228 |
| _version_ | 1811095420616572928 |
|---|---|
| author | Xu, Jinbo Singh, Rohit Park, Daniel Kyu Hosur, Raghavendra Berger, Bonnie |
| author2 | Massachusetts Institute of Technology. Computational and Systems Biology Program |
| author_facet | Massachusetts Institute of Technology. Computational and Systems Biology Program Xu, Jinbo Singh, Rohit Park, Daniel Kyu Hosur, Raghavendra Berger, Bonnie |
| author_sort | Xu, Jinbo |
| collection | MIT |
| description | Struct2Net is a web server for predicting interactions between arbitrary protein pairs using a structure-based approach. Prediction of protein–protein interactions (PPIs) is a central area of interest and successful prediction would provide leads for experiments and drug design; however, the experimental coverage of the PPI interactome remains inadequate. We believe that Struct2Net is the first community-wide resource to provide structure-based PPI predictions that go beyond homology modeling. Also, most web-resources for predicting PPIs currently rely on functional genomic data (e.g. GO annotation, gene expression, cellular localization, etc.). Our structure-based approach is independent of such methods and only requires the sequence information of the proteins being queried. The web service allows multiple querying options, aimed at maximizing flexibility. For the most commonly studied organisms (fly, human and yeast), predictions have been pre-computed and can be retrieved almost instantaneously. For proteins from other species, users have the option of getting a quick-but-approximate result (using orthology over pre-computed results) or having a full-blown computation performed. The web service is freely available at http://struct2net.csail.mit.edu. |
| first_indexed | 2024-09-23T16:16:29Z |
| format | Article |
| id | mit-1721.1/70951 |
| institution | Massachusetts Institute of Technology |
| language | en_US |
| last_indexed | 2024-09-23T16:16:29Z |
| publishDate | 2012 |
| publisher | Oxford University Press (OUP) |
| record_format | dspace |
| spelling | mit-1721.1/709512022-10-02T07:26:18Z Struct2Net: a web service to predict protein–protein interactions using a structure-based approach Xu, Jinbo Singh, Rohit Park, Daniel Kyu Hosur, Raghavendra Berger, Bonnie Massachusetts Institute of Technology. Computational and Systems Biology Program Massachusetts Institute of Technology. Computer Science and Artificial Intelligence Laboratory Massachusetts Institute of Technology. Department of Materials Science and Engineering Massachusetts Institute of Technology. Department of Mathematics Berger Leighton, Bonnie Singh, Rohit Park, Daniel Kyu Hosur, Raghavendra Berger, Bonnie Struct2Net is a web server for predicting interactions between arbitrary protein pairs using a structure-based approach. Prediction of protein–protein interactions (PPIs) is a central area of interest and successful prediction would provide leads for experiments and drug design; however, the experimental coverage of the PPI interactome remains inadequate. We believe that Struct2Net is the first community-wide resource to provide structure-based PPI predictions that go beyond homology modeling. Also, most web-resources for predicting PPIs currently rely on functional genomic data (e.g. GO annotation, gene expression, cellular localization, etc.). Our structure-based approach is independent of such methods and only requires the sequence information of the proteins being queried. The web service allows multiple querying options, aimed at maximizing flexibility. For the most commonly studied organisms (fly, human and yeast), predictions have been pre-computed and can be retrieved almost instantaneously. For proteins from other species, users have the option of getting a quick-but-approximate result (using orthology over pre-computed results) or having a full-blown computation performed. The web service is freely available at http://struct2net.csail.mit.edu. National Institute of General Medical Sciences (U.S.) (Grant Number 1R01GM081871) National Institutes of Health (U.S.) 2012-05-25T18:21:54Z 2012-05-25T18:21:54Z 2010-05 2010-05 Article http://purl.org/eprint/type/JournalArticle 0305-1048 1362-4962 http://hdl.handle.net/1721.1/70951 Singh, R. et al. “Struct2Net: a Web Service to Predict Protein-protein Interactions Using a Structure-based Approach.” Nucleic Acids Research 38.Web Server (2010): W508–W515. Web. 25 May 2012. https://orcid.org/0000-0002-2724-7228 en_US http://dx.doi.org/10.1093/nar/gkq481 Nucleic Acids Research Creative Commons Attribution Non-Commercial http://creativecommons.org/licenses/by-nc/2.5 application/pdf Oxford University Press (OUP) Oxford |
| spellingShingle | Xu, Jinbo Singh, Rohit Park, Daniel Kyu Hosur, Raghavendra Berger, Bonnie Struct2Net: a web service to predict protein–protein interactions using a structure-based approach |
| title | Struct2Net: a web service to predict protein–protein interactions using a structure-based approach |
| title_full | Struct2Net: a web service to predict protein–protein interactions using a structure-based approach |
| title_fullStr | Struct2Net: a web service to predict protein–protein interactions using a structure-based approach |
| title_full_unstemmed | Struct2Net: a web service to predict protein–protein interactions using a structure-based approach |
| title_short | Struct2Net: a web service to predict protein–protein interactions using a structure-based approach |
| title_sort | struct2net a web service to predict protein protein interactions using a structure based approach |
| url | http://hdl.handle.net/1721.1/70951 https://orcid.org/0000-0002-2724-7228 |
| work_keys_str_mv | AT xujinbo struct2netawebservicetopredictproteinproteininteractionsusingastructurebasedapproach AT singhrohit struct2netawebservicetopredictproteinproteininteractionsusingastructurebasedapproach AT parkdanielkyu struct2netawebservicetopredictproteinproteininteractionsusingastructurebasedapproach AT hosurraghavendra struct2netawebservicetopredictproteinproteininteractionsusingastructurebasedapproach AT bergerbonnie struct2netawebservicetopredictproteinproteininteractionsusingastructurebasedapproach |