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STRING v9.1

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Authors:
  • Franceschini, A. ;
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    University of Zurich
  • Simonovic, M. ;
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    University of Zurich
  • Roth, A. ;
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    University of Zurich
  • Von Mering, C. ;
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    University of Zurich
  • Szklarczyk, D. ;
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    Disease Systems Biology Program, Novo Nordisk Foundation Center for Protein Research, Faculty of Health and Medical Sciences, Københavns Universitet
  • Pletscher-Frankild, Sune ;
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    Disease Systems Biology Program, Novo Nordisk Foundation Center for Protein Research, Faculty of Health and Medical Sciences, Københavns Universitet
  • Jensen, L.J. ;
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    Orcid logo0000-0001-7885-715X
    Disease Systems Biology Program, Novo Nordisk Foundation Center for Protein Research, Faculty of Health and Medical Sciences, Københavns Universitet
  • Kuhn, Melanie Michelsen ;
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    Aalborg University
  • Lin, J. ;
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    University of Milan
  • Minguez, P. ;
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    European Molecular Biology Laboratory, Heidelberg
  • Bork, P.
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    European Molecular Biology Laboratory, Heidelberg
Subtitle:
Protein-protein interaction networks, with increased coverage and integration
DOI:
10.1093/nar/gks1094
Abstract:
Complete knowledge of all direct and indirect interactions between proteins in a given cell would represent an important milestone towards a comprehensive description of cellular mechanisms and functions. Although this goal is still elusive, considerable progress has been made - particularly for certain model organisms and functional systems. Currently, protein interactions and associations are annotated at various levels of detail in online resources, ranging from raw data repositories to highly formalized pathway databases. For many applications, a global view of all the available interaction data is desirable, including lower-quality data and/or computational predictions. The STRING database (http://string-db.org/) aims to provide such a global perspective for as many organisms as feasible. Known and predicted associations are scored and integrated, resulting in comprehensive protein networks covering >1100 organisms. Here, we describe the update to version 9.1 of STRING, introducing several improvements: (i) we extend the automated mining of scientific texts for interaction information, to now also include full-text articles; (ii) we entirely re-designed the algorithm for transferring interactions from one model organism to the other; and (iii) we provide users with statistical information on any functional enrichment observed in their networks.
Type:
Journal article
Language:
English
Published in:
Nucleic Acids Research, 2013, Vol 41, Issue D1
Main Research Area:
Medical science
Publication Status:
Published
Review type:
Peer Review
Submission year:
2013
Scientific Level:
Scientific
ID:
234075246

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