STRING v10: protein-protein interaction networks, integrated over the tree of life

Research output: Contribution to journalJournal articleResearchpeer-review

Standard

STRING v10 : protein-protein interaction networks, integrated over the tree of life. / Szklarczyk, Damian; Franceschini, Andrea; Wyder, Stefan; Forslund, Kristoffer; Heller, Davide; Huerta-Cepas, Jaime; Simonovic, Milan; Roth, Alexander; Santos Delgado, Alberto; Tsafou, Kalliopi P; Kuhn, Michael; Bork, Peer; Jensen, Lars J; von Mering, Christian.

In: Nucleic Acids Research, Vol. 43, No. D1, 28.01.2015, p. D447-52.

Research output: Contribution to journalJournal articleResearchpeer-review

Harvard

Szklarczyk, D, Franceschini, A, Wyder, S, Forslund, K, Heller, D, Huerta-Cepas, J, Simonovic, M, Roth, A, Santos Delgado, A, Tsafou, KP, Kuhn, M, Bork, P, Jensen, LJ & von Mering, C 2015, 'STRING v10: protein-protein interaction networks, integrated over the tree of life', Nucleic Acids Research, vol. 43, no. D1, pp. D447-52. https://doi.org/10.1093/nar/gku1003

APA

Szklarczyk, D., Franceschini, A., Wyder, S., Forslund, K., Heller, D., Huerta-Cepas, J., ... von Mering, C. (2015). STRING v10: protein-protein interaction networks, integrated over the tree of life. Nucleic Acids Research, 43(D1), D447-52. https://doi.org/10.1093/nar/gku1003

Vancouver

Szklarczyk D, Franceschini A, Wyder S, Forslund K, Heller D, Huerta-Cepas J et al. STRING v10: protein-protein interaction networks, integrated over the tree of life. Nucleic Acids Research. 2015 Jan 28;43(D1):D447-52. https://doi.org/10.1093/nar/gku1003

Author

Szklarczyk, Damian ; Franceschini, Andrea ; Wyder, Stefan ; Forslund, Kristoffer ; Heller, Davide ; Huerta-Cepas, Jaime ; Simonovic, Milan ; Roth, Alexander ; Santos Delgado, Alberto ; Tsafou, Kalliopi P ; Kuhn, Michael ; Bork, Peer ; Jensen, Lars J ; von Mering, Christian. / STRING v10 : protein-protein interaction networks, integrated over the tree of life. In: Nucleic Acids Research. 2015 ; Vol. 43, No. D1. pp. D447-52.

Bibtex

@article{27d3879988c447839d3794782c3b87e3,
title = "STRING v10: protein-protein interaction networks, integrated over the tree of life",
abstract = "The many functional partnerships and interactions that occur between proteins are at the core of cellular processing and their systematic characterization helps to provide context in molecular systems biology. However, known and predicted interactions are scattered over multiple resources, and the available data exhibit notable differences in terms of quality and completeness. The STRING database (http://string-db.org) aims to provide a critical assessment and integration of protein-protein interactions, including direct (physical) as well as indirect (functional) associations. The new version 10.0 of STRING covers more than 2000 organisms, which has necessitated novel, scalable algorithms for transferring interaction information between organisms. For this purpose, we have introduced hierarchical and self-consistent orthology annotations for all interacting proteins, grouping the proteins into families at various levels of phylogenetic resolution. Further improvements in version 10.0 include a completely redesigned prediction pipeline for inferring protein-protein associations from co-expression data, an API interface for the R computing environment and improved statistical analysis for enrichment tests in user-provided networks.",
author = "Damian Szklarczyk and Andrea Franceschini and Stefan Wyder and Kristoffer Forslund and Davide Heller and Jaime Huerta-Cepas and Milan Simonovic and Alexander Roth and {Santos Delgado}, Alberto and Tsafou, {Kalliopi P} and Michael Kuhn and Peer Bork and Jensen, {Lars J} and {von Mering}, Christian",
note = "{\circledC} The Author(s) 2014. Published by Oxford University Press on behalf of Nucleic Acids Research.",
year = "2015",
month = "1",
day = "28",
doi = "10.1093/nar/gku1003",
language = "English",
volume = "43",
pages = "D447--52",
journal = "Nucleic Acids Research",
issn = "0305-1048",
publisher = "Oxford University Press",
number = "D1",

}

RIS

TY - JOUR

T1 - STRING v10

T2 - protein-protein interaction networks, integrated over the tree of life

AU - Szklarczyk, Damian

AU - Franceschini, Andrea

AU - Wyder, Stefan

AU - Forslund, Kristoffer

AU - Heller, Davide

AU - Huerta-Cepas, Jaime

AU - Simonovic, Milan

AU - Roth, Alexander

AU - Santos Delgado, Alberto

AU - Tsafou, Kalliopi P

AU - Kuhn, Michael

AU - Bork, Peer

AU - Jensen, Lars J

AU - von Mering, Christian

N1 - © The Author(s) 2014. Published by Oxford University Press on behalf of Nucleic Acids Research.

PY - 2015/1/28

Y1 - 2015/1/28

N2 - The many functional partnerships and interactions that occur between proteins are at the core of cellular processing and their systematic characterization helps to provide context in molecular systems biology. However, known and predicted interactions are scattered over multiple resources, and the available data exhibit notable differences in terms of quality and completeness. The STRING database (http://string-db.org) aims to provide a critical assessment and integration of protein-protein interactions, including direct (physical) as well as indirect (functional) associations. The new version 10.0 of STRING covers more than 2000 organisms, which has necessitated novel, scalable algorithms for transferring interaction information between organisms. For this purpose, we have introduced hierarchical and self-consistent orthology annotations for all interacting proteins, grouping the proteins into families at various levels of phylogenetic resolution. Further improvements in version 10.0 include a completely redesigned prediction pipeline for inferring protein-protein associations from co-expression data, an API interface for the R computing environment and improved statistical analysis for enrichment tests in user-provided networks.

AB - The many functional partnerships and interactions that occur between proteins are at the core of cellular processing and their systematic characterization helps to provide context in molecular systems biology. However, known and predicted interactions are scattered over multiple resources, and the available data exhibit notable differences in terms of quality and completeness. The STRING database (http://string-db.org) aims to provide a critical assessment and integration of protein-protein interactions, including direct (physical) as well as indirect (functional) associations. The new version 10.0 of STRING covers more than 2000 organisms, which has necessitated novel, scalable algorithms for transferring interaction information between organisms. For this purpose, we have introduced hierarchical and self-consistent orthology annotations for all interacting proteins, grouping the proteins into families at various levels of phylogenetic resolution. Further improvements in version 10.0 include a completely redesigned prediction pipeline for inferring protein-protein associations from co-expression data, an API interface for the R computing environment and improved statistical analysis for enrichment tests in user-provided networks.

U2 - 10.1093/nar/gku1003

DO - 10.1093/nar/gku1003

M3 - Journal article

C2 - 25352553

VL - 43

SP - D447-52

JO - Nucleic Acids Research

JF - Nucleic Acids Research

SN - 0305-1048

IS - D1

ER -

ID: 127247654