Cargando…

Characterization and comparison of gene-centered human interactomes

The complex web of macromolecular interactions occurring within cells—the interactome—is the backbone of an increasing number of studies, but a clear consensus on the exact structure of this network is still lacking. Different genome-scale maps of human interactome have been obtained through several...

Descripción completa

Detalles Bibliográficos
Autores principales: Mosca, Ettore, Bersanelli, Matteo, Matteuzzi, Tommaso, Di Nanni, Noemi, Castellani, Gastone, Milanesi, Luciano, Remondini, Daniel
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8574298/
https://www.ncbi.nlm.nih.gov/pubmed/34010955
http://dx.doi.org/10.1093/bib/bbab153
_version_ 1784595575395581952
author Mosca, Ettore
Bersanelli, Matteo
Matteuzzi, Tommaso
Di Nanni, Noemi
Castellani, Gastone
Milanesi, Luciano
Remondini, Daniel
author_facet Mosca, Ettore
Bersanelli, Matteo
Matteuzzi, Tommaso
Di Nanni, Noemi
Castellani, Gastone
Milanesi, Luciano
Remondini, Daniel
author_sort Mosca, Ettore
collection PubMed
description The complex web of macromolecular interactions occurring within cells—the interactome—is the backbone of an increasing number of studies, but a clear consensus on the exact structure of this network is still lacking. Different genome-scale maps of human interactome have been obtained through several experimental techniques and functional analyses. Moreover, these maps can be enriched through literature-mining approaches, and different combinations of various ‘source’ databases have been used in the literature. It is therefore unclear to which extent the various interactomes yield similar results when used in the context of interactome-based approaches in network biology. We compared a comprehensive list of human interactomes on the basis of topology, protein complexes, molecular pathways, pathway cross-talk and disease gene prediction. In a general context of relevant heterogeneity, our study provides a series of qualitative and quantitative parameters that describe the state of the art of human interactomes and guidelines for selecting interactomes in future applications.
format Online
Article
Text
id pubmed-8574298
institution National Center for Biotechnology Information
language English
publishDate 2021
publisher Oxford University Press
record_format MEDLINE/PubMed
spelling pubmed-85742982021-11-09 Characterization and comparison of gene-centered human interactomes Mosca, Ettore Bersanelli, Matteo Matteuzzi, Tommaso Di Nanni, Noemi Castellani, Gastone Milanesi, Luciano Remondini, Daniel Brief Bioinform Review The complex web of macromolecular interactions occurring within cells—the interactome—is the backbone of an increasing number of studies, but a clear consensus on the exact structure of this network is still lacking. Different genome-scale maps of human interactome have been obtained through several experimental techniques and functional analyses. Moreover, these maps can be enriched through literature-mining approaches, and different combinations of various ‘source’ databases have been used in the literature. It is therefore unclear to which extent the various interactomes yield similar results when used in the context of interactome-based approaches in network biology. We compared a comprehensive list of human interactomes on the basis of topology, protein complexes, molecular pathways, pathway cross-talk and disease gene prediction. In a general context of relevant heterogeneity, our study provides a series of qualitative and quantitative parameters that describe the state of the art of human interactomes and guidelines for selecting interactomes in future applications. Oxford University Press 2021-05-19 /pmc/articles/PMC8574298/ /pubmed/34010955 http://dx.doi.org/10.1093/bib/bbab153 Text en © The Author(s) 2021. Published by Oxford University Press. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Review
Mosca, Ettore
Bersanelli, Matteo
Matteuzzi, Tommaso
Di Nanni, Noemi
Castellani, Gastone
Milanesi, Luciano
Remondini, Daniel
Characterization and comparison of gene-centered human interactomes
title Characterization and comparison of gene-centered human interactomes
title_full Characterization and comparison of gene-centered human interactomes
title_fullStr Characterization and comparison of gene-centered human interactomes
title_full_unstemmed Characterization and comparison of gene-centered human interactomes
title_short Characterization and comparison of gene-centered human interactomes
title_sort characterization and comparison of gene-centered human interactomes
topic Review
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8574298/
https://www.ncbi.nlm.nih.gov/pubmed/34010955
http://dx.doi.org/10.1093/bib/bbab153
work_keys_str_mv AT moscaettore characterizationandcomparisonofgenecenteredhumaninteractomes
AT bersanellimatteo characterizationandcomparisonofgenecenteredhumaninteractomes
AT matteuzzitommaso characterizationandcomparisonofgenecenteredhumaninteractomes
AT dinanninoemi characterizationandcomparisonofgenecenteredhumaninteractomes
AT castellanigastone characterizationandcomparisonofgenecenteredhumaninteractomes
AT milanesiluciano characterizationandcomparisonofgenecenteredhumaninteractomes
AT remondinidaniel characterizationandcomparisonofgenecenteredhumaninteractomes