dorsal/arxiv
View SchemaVirtual Identification of Essential Proteins Within the Protein Interaction Network of Yeast
| Authors | Ernesto Estrada |
|---|---|
| Categories | |
| ArXiv ID | q-bio/0505007 |
| URL | https://arxiv.org/abs/q-bio/0505007 |
| DOI | 10.1002/pmic.200500209 |
Abstract
Topological analysis of large scale protein-protein interaction networks (PINs) is important for understanding the organisational and functional principles of individual proteins. The number of interactions that a protein has in a PIN has been observed to be correlated with its indispensability. Essential proteins generally have more interactions than the non-essential ones. We show here that the lethality associated with removal of a protein from the yeast proteome correlates with different centrality measures of the nodes in the PIN, such as the closeness of a protein to many other proteins, or the number of pairs of proteins which need a specific protein as an intermediary in their communications, or the participation of a protein in different protein clusters in the PIN. These measures are significantly better than random selection in identifying essential proteins in a PIN. Centrality measures based on graph spectral properties of the network, in particular the subgraph centrality, show the best performance in identifying essential proteins in the yeast PIN. Subgraph centrality gives important structural information about the role of individual proteins and permits the selection of possible targets for rational drug discovery through the identification of essential proteins in the PIN.
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"abstract": "Topological analysis of large scale protein-protein interaction networks\n(PINs) is important for understanding the organisational and functional\nprinciples of individual proteins. The number of interactions that a protein\nhas in a PIN has been observed to be correlated with its indispensability.\nEssential proteins generally have more interactions than the non-essential\nones. We show here that the lethality associated with removal of a protein from\nthe yeast proteome correlates with different centrality measures of the nodes\nin the PIN, such as the closeness of a protein to many other proteins, or the\nnumber of pairs of proteins which need a specific protein as an intermediary in\ntheir communications, or the participation of a protein in different protein\nclusters in the PIN. These measures are significantly better than random\nselection in identifying essential proteins in a PIN. Centrality measures based\non graph spectral properties of the network, in particular the subgraph\ncentrality, show the best performance in identifying essential proteins in the\nyeast PIN. Subgraph centrality gives important structural information about the\nrole of individual proteins and permits the selection of possible targets for\nrational drug discovery through the identification of essential proteins in the\nPIN.",
"arxiv_id": "q-bio/0505007",
"authors": [
"Ernesto Estrada"
],
"categories": [
"q-bio.MN"
],
"doi": "10.1002/pmic.200500209",
"title": "Virtual Identification of Essential Proteins Within the Protein Interaction Network of Yeast",
"url": "https://arxiv.org/abs/q-bio/0505007"
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