ArticleBMC bioinformatics2015
Essentiality and centrality in protein interaction networks revisited.
Article in BMC bioinformatics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed, 43 citations in OpenAlex.
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- Integration of Gastric Cancer RNA-Seq Datasets Along With PPI Network Suggests That Nonhub Nodes Have the Potential to Become Biomarkers.Cancer reports (Hoboken, N.J.) · 2025Article
- Gene transferability and sociality do not correlate with gene connectivity.Proceedings. Biological sciences · 2022Article
- Network analysis and the impact of Aflibercept on specific mediators of angiogenesis in HUVEC cells.Journal of cellular and molecular medicine · 2021Article
- Constraint-based models for dominating protein interaction networks.IET systems biology · 2021Article
- Protein-protein interactions of human viruses.Seminars in cell & developmental biology · 2020Review
- Prioritization and comprehensive analysis of genes associated with melanoma.Oncology letters · 2019Article
- Species-specific transcriptomic network inference of interspecies interactions.The ISME journal · 2018Article
- A systematic survey of centrality measures for protein-protein interaction networks.BMC systems biology · 2018Article
- The phenotype control kernel of a biomolecular regulatory network.BMC systems biology · 2018Article
- Human gene essentiality.Nature reviews. Genetics · 2018Review
- Critical controllability analysis of directed biological networks using efficient graph reduction.Scientific reports · 2017Article
- Controlling Directed Protein Interaction Networks in Cancer.Scientific reports · 2017Article
- DIFFERENTIAL PATHWAY DEPENDENCY DISCOVERY ASSOCIATED WITH DRUG RESPONSE ACROSS CANCER CELL LINES.Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing · 2017Article
- Diabetic Retinopathy and Laser Therapy in Rats: A Protein-Protein Interaction Network Analysis.Journal of lasers in medical sciences · 2017Article
- Identification of critical paralog groups with indispensable roles in the regulation of signaling flow.Scientific reports · 2016Article
- In silico identification of essential proteins in Corynebacterium pseudotuberculosis based on protein-protein interaction networks.BMC systems biology · 2016Article
- Comparative analysis of housekeeping and tissue-specific driver nodes in human protein interaction networks.BMC bioinformatics · 2016Article
- Critical controllability in proteome-wide protein interaction network integrating transcriptome.Scientific reports · 2016Article
- Whole-exome sequencing in obsessive-compulsive disorder identifies rare mutations in immunological and neurodevelopmental pathways.Translational psychiatry · 2016Article
Corrections and comments
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundMinimum dominating sets (MDSet) of protein interaction networks allow the control of underlying protein interaction networks through their topological placement. While essential proteins are enriched in MDSets, we hypothesize that the statistical properties of biological functions of essential genes are enhanced when we focus on essential MDSet proteins (e-MDSet).
resultsHere, we determined minimum dominating sets of proteins (MDSet) in interaction networks of E. coli, S. cerevisiae and H. sapiens, defined as subsets of proteins whereby each remaining protein can be reached by a single interaction. We compared several topological and functional parameters of essential, MDSet, and essential MDSet (e-MDSet) proteins. In particular, we observed that their topological placement allowed e-MDSet proteins to provide a positive correlation between degree and lethality, connect more protein complexes, and have a stronger impact on network resilience than essential proteins alone. In comparison to essential proteins we further found that interactions between e-MDSet proteins appeared more frequently within complexes, while interactions of e-MDSet proteins between complexes were depleted. Finally, these e-MDSet proteins classified into functional groupings that play a central role in survival and adaptability.
conclusionsThe determination of e-MDSet of an organism highlights a set of proteins that enhances the enrichment signals of biological functions of essential proteins. As a consequence, we surmise that e-MDSets may provide a new method of evaluating the core proteins of an organism.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.