Proteomics

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Update on virtual-experimental 2DE approach in chromosome-centric human proteome project

ABSTRACT: In the boundaries of chromosome-centric Human Proteome Project c-HPP to obtain information about proteoforms coded by chromosome 18, several cell lines were analyzed. In our study we have been using proteoform separation by 2DE (sectional analysis) and semi-virtual 2DE with following shotgun mass-spectrometry using LC ESI-MS/MS. Previously, we published a first draft of this research, where only HepG2 cells were used. Here, next step was done using liver, glioblastoma, fibroblasts, kidney cells and plasma. Altogether, confident (2 significant sequences minimum) information about proteoforms coded by ~80 genes was obtained. The 3D-graphs showing distribution of different proteoforms from the same gene in 2D map were generated. Additionally, semi-virtual 2DE approach allowed for detecting more proteoforms and estimate their pI more precisely

INSTRUMENT(S): Q Exactive

ORGANISM(S): Homo Sapiens (ncbitaxon:9606)

SUBMITTER: Stanislav Naryzhny  

PROVIDER: MSV000086448 | MassIVE | Thu Nov 12 15:58:00 GMT 2020

SECONDARY ACCESSION(S): PXD010142

REPOSITORIES: MassIVE

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Next Steps on in Silico 2DE Analyses of Chromosome 18 Proteoforms.

Naryzhny Stanislav N SN   Zorina Elena S ES   Kopylov Arthur T AT   Zgoda Victor G VG   Kleyst Olga A OA   Archakov Alexander I AI  

Journal of proteome research 20181002 12

In the boundaries of the chromosome-centric Human Proteome Project (c-HPP) to obtain information about proteoforms coded by chromosome 18, several cell lines (HepG2, glioblastoma, LEH), normal liver, and plasma were analyzed. In our study, we have been using proteoform separation by two-dimensional electrophoresis (2DE) (a sectional analysis) and a semivirtual 2DE with following shotgun mass spectrometry using LC-ESI-MS/MS. Previously, we published a first draft of this research, where only HepG  ...[more]

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