Introducing the hypothome: a way to integrate predicted proteins in interactomes

Claus Desler Madsen; Sine Zambach; Prashanth Suravajhala; Lene Juel Rasmussen

doi:10.1504/ijbra.2014.065247

Introducing the hypothome: a way to integrate predicted proteins in interactomes

Claus Desler Madsen, Sine Zambach, Prashanth Suravajhala, Lene Juel Rasmussen

1 Citation (Scopus)

Abstract

An interactome is defined as a network of protein-protein interactions built from experimentally verified interactions. Basic science as well as application-based research of potential new drugs can be promoted by including proteins that are only predicted into interactomes. The disadvantage of doing so is the risk of devaluing the definition of interactomes. By adding proteins that have only been predicted, an interactome can no longer be classified as experimentally verified and the integrity of the interactome will be endured. Therefore, we propose the term 'hypothome' (collection of hypothetical interactions of predicted proteins). The purpose of such a term is to provide a denotation to the interactome concept allowing the interaction of predicted proteins without devaluing the integrity of the interactome. We define a rule-set for a hypothome and have integrated the predicted protein interaction partners to the hypothetical protein. EAW74251 is an example for the usage of a hypothome.

Original language	English
Journal	International Journal of Bioinformatics Research and Applications
Volume	10
Issue number	6
Pages (from-to)	647-52
Number of pages	6
ISSN	1744-5485
DOIs	https://doi.org/10.1504/ijbra.2014.065247
Publication status	Published - 2014

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title = "Introducing the hypothome: a way to integrate predicted proteins in interactomes",

abstract = "An interactome is defined as a network of protein-protein interactions built from experimentally verified interactions. Basic science as well as application-based research of potential new drugs can be promoted by including proteins that are only predicted into interactomes. The disadvantage of doing so is the risk of devaluing the definition of interactomes. By adding proteins that have only been predicted, an interactome can no longer be classified as experimentally verified and the integrity of the interactome will be endured. Therefore, we propose the term 'hypothome' (collection of hypothetical interactions of predicted proteins). The purpose of such a term is to provide a denotation to the interactome concept allowing the interaction of predicted proteins without devaluing the integrity of the interactome. We define a rule-set for a hypothome and have integrated the predicted protein interaction partners to the hypothetical protein. EAW74251 is an example for the usage of a hypothome.",

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T1 - Introducing the hypothome

T2 - a way to integrate predicted proteins in interactomes

AU - Madsen, Claus Desler

AU - Zambach, Sine

AU - Suravajhala, Prashanth

AU - Rasmussen, Lene Juel

PY - 2014

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N2 - An interactome is defined as a network of protein-protein interactions built from experimentally verified interactions. Basic science as well as application-based research of potential new drugs can be promoted by including proteins that are only predicted into interactomes. The disadvantage of doing so is the risk of devaluing the definition of interactomes. By adding proteins that have only been predicted, an interactome can no longer be classified as experimentally verified and the integrity of the interactome will be endured. Therefore, we propose the term 'hypothome' (collection of hypothetical interactions of predicted proteins). The purpose of such a term is to provide a denotation to the interactome concept allowing the interaction of predicted proteins without devaluing the integrity of the interactome. We define a rule-set for a hypothome and have integrated the predicted protein interaction partners to the hypothetical protein. EAW74251 is an example for the usage of a hypothome.

AB - An interactome is defined as a network of protein-protein interactions built from experimentally verified interactions. Basic science as well as application-based research of potential new drugs can be promoted by including proteins that are only predicted into interactomes. The disadvantage of doing so is the risk of devaluing the definition of interactomes. By adding proteins that have only been predicted, an interactome can no longer be classified as experimentally verified and the integrity of the interactome will be endured. Therefore, we propose the term 'hypothome' (collection of hypothetical interactions of predicted proteins). The purpose of such a term is to provide a denotation to the interactome concept allowing the interaction of predicted proteins without devaluing the integrity of the interactome. We define a rule-set for a hypothome and have integrated the predicted protein interaction partners to the hypothetical protein. EAW74251 is an example for the usage of a hypothome.

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DO - 10.1504/ijbra.2014.065247

M3 - Journal article

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JO - International Journal of Bioinformatics Research and Applications

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Introducing the hypothome: a way to integrate predicted proteins in interactomes

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