A database for inventory of proteoform profiles: "2DE-pattern"

Stanislav Naryzhny; Nikolay Klopov; Natalia Ronzhina; Elena Zorina; Victor Zgoda; Olga Kleyst; Natalia Belyakova; Olga Legina

doi:10.1002/elps.201900468

A database for inventory of proteoform profiles: "2DE-pattern"

Electrophoresis. 2020 Jun;41(12):1118-1124. doi: 10.1002/elps.201900468. Epub 2020 Apr 27.

Authors

Stanislav Naryzhny^{1

2}, Nikolay Klopov², Natalia Ronzhina², Elena Zorina¹, Victor Zgoda¹, Olga Kleyst², Natalia Belyakova², Olga Legina²

Affiliations

¹ Orekhovich Institute of Biomedical Chemistry of Russian Academy of Medical Sciences, Moscow, Russia.
² B.P. Konstantinov Petersburg Nuclear Physics Institute, National Research Center "Kurchatov Institute", Gatchina, Russia.

PMID: 32307725
DOI: 10.1002/elps.201900468

Abstract

The human proteome is composed of a diverse and heterogeneous range of gene products/proteoforms/protein species. Because of the growing amount of information about proteoforms generated by different methods, we need a convenient approach to make an inventory of the data. Here, we present a database of proteoforms that is based on information obtained by separation of proteoforms using 2DE followed by shotgun ESI-LC-MS/MS. The database's principles and structure are described. The database is called "2DE-pattern" as it contains multiple isoform-centric patterns of proteoforms separated according to 2DE principles. The database can be freely used at http://2de-pattern.pnpi.nrcki.ru.

Keywords: 2DE; database; pattern; protein species; proteoforms.

MeSH terms

Chromatography, Liquid
Databases, Protein*
Electrophoresis, Gel, Two-Dimensional*
Humans
Protein Isoforms* / analysis
Protein Isoforms* / chemistry
Proteome* / analysis
Proteome* / chemistry
Proteomics
Tandem Mass Spectrometry

Substances

Protein Isoforms
Proteome