PreprintCited by 817Bioinformatics and Genomic NetworksBiomedical Text Mining and OntologiesGene Regulatory Network Analysis

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Protein networks in disease

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Ideker, Trey, Sharan, Roded·2008·Genome Research

DOI 10.1101/gr.071852.107PMC PMC3863981

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Abstract

During a decade of proof-of-principle analysis in model organisms, protein networks have been used to further the study of molecular evolution, to gain insight into the robustness of cells to perturbation, and for assignment of new protein functions. Following these analyses, and with the recent rise of protein interaction measurements in mammals, protein networks are increasingly serving as tools to unravel the molecular basis of disease. We review promising applications of protein networks to disease in four major areas: identifying new disease genes; the study of their network properties; identifying disease-related subnetworks; and network-based disease classification. Applications in infectious disease, personalized medicine, and pharmacology are also forthcoming as the available protein network information improves in quality and coverage.

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Authors: Ideker, T., & Sharan, R.
Affiliations: University of California San Diego (US)
Tel Aviv University (IL)
ORCID: Ideker, Trey
Sharan, Roded
Venue: Genome Research
Publisher: Cold Spring Harbor Laboratory
Published: 2008-04
Volume: 18
Issue: 4
Pages: 644-652
ISSN: 1088-9051 (ISSN-L)
DOI: 10.1101/gr.071852.107
PMC: PMC3863981
OpenAlex: W2100025044
Cited by: 817
References: 104
Citations by year: 2026: 7 · 2025: 16 · 2024: 21 · 2023: 30 · 2022: 15 · 2021: 33 · 2020: 50 · 2019: 46 · 2018: 40 · 2017: 42 · 2016: 43 · 2015: 64 · 2014: 61 · 2013: 81 · 2012: 77
Type: posted content
Language: en
Open access: hybrid
doi.org
Licence: public-domain
Locations: Genome Research (publishedVersion, public-domain)
Europe PMC (PubMed Central) (publishedVersion)
PubMed Central (publishedVersion)
PubMed (publishedVersion)
Funders: Israel Science Foundation
National Institutes of Health
National Institute of General Medical Sciences (GM 070743, R01GM070743)
National Institute of Environmental Health Sciences (ES14811, R01ES014811)
Topics: Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Bioinformatics and Genomic Networks
Health Sciences › Medicine › Health Informatics › Biomedical Text Mining and Ontologies
Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gene Regulatory Network Analysis
Keywords: protein-protein interaction network, disease-associated genes, network characteristics, molecular basis of disease, protein function prediction, molecular evolution, infectious diseases, personalized medicine
MeSH terms: Disease, Fungal Proteins, Humans, Huntington Disease, Phenotype, Yeasts, Gene Expression Regulation, Neoplastic, Case-Control Studies, Genetic Predisposition to Disease, Protein Interaction Mapping, Genetic Diseases, Inborn, Gene Regulatory Networks

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