Biomolecule and Bioentity Interaction Databases in Systems Biology : A Comprehensive Review

Technological advances in high-throughput techniques have resulted in tremendous growth of complex biological datasets providing evidence regarding various biomolecular interactions. To cope with this data flood, computational approaches, web services, and databases have been implemented to deal with issues such as data integration, visualization, exploration, organization, scalability, and complexity. Nevertheless, as the number of such sets increases, it is becoming more and more difficult for an end user to know what the scope and focus of each repository is and how redundant the information between them is. Several repositories have a more general scope, while others focus on specialized aspects, such as specific organisms or biological systems. Unfortunately, many of these databases are self-contained or poorly documented and maintained. For a clearer view, in this article we provide a comprehensive categorization, comparison and evaluation of such repositories for different bioentity interaction types. We discuss most of the publicly available services based on their content, sources of information, data representation methods, user-friendliness, scope and interconnectivity, and we comment on their strengths and weaknesses. We aim for this review to reach a broad readership varying from biomedical beginners to experts and serve as a reference article in the field of Network Biology.

Medienart:

E-Artikel

Erscheinungsjahr:

2021

Erschienen:

2021

Enthalten in:

Zur Gesamtaufnahme - volume:11

Enthalten in:

Biomolecules - 11(2021), 8 vom: 20. Aug.

Sprache:

Englisch

Beteiligte Personen:

Baltoumas, Fotis A [VerfasserIn]
Zafeiropoulou, Sofia [VerfasserIn]
Karatzas, Evangelos [VerfasserIn]
Koutrouli, Mikaela [VerfasserIn]
Thanati, Foteini [VerfasserIn]
Voutsadaki, Kleanthi [VerfasserIn]
Gkonta, Maria [VerfasserIn]
Hotova, Joana [VerfasserIn]
Kasionis, Ioannis [VerfasserIn]
Hatzis, Pantelis [VerfasserIn]
Pavlopoulos, Georgios A [VerfasserIn]

Links:

Volltext

Themen:

63231-63-0
Associations
Biological interactions
Biomedical networks
Data integration
Databases
Journal Article
Network biology
RNA
Research Support, Non-U.S. Gov't
Review

Anmerkungen:

Date Completed 25.10.2021

Date Revised 25.10.2021

published: Electronic

Citation Status MEDLINE

doi:

10.3390/biom11081245

funding:

Förderinstitution / Projekttitel:

PPN (Katalog-ID):

NLM329828207