The Bioinformatic Identification of Proteins with Varying Levels of Post-Translational Modifications in Experimental Ischemic Stroke in Mice

• Published in: Biochemistry (Moscow). Supplement. Series B, Biomedical chemistry Vol. 16; no. 2; pp. 113 - 124
• Main Authors: Skvortsov, V. S., Ivanova, Ya. O., Voronina, A. I.
• Format: Journal Article
• Language: English
• Published: Moscow Pleiades Publishing 2022; Springer Nature B.V
• Subjects: Bioorganic Chemistry; Chemistry; Chemistry and Materials Science; Deamination; Dynamin; Glycogen; Glycogen phosphorylase; Heat shock proteins; Ischemia; Medicinal Chemistry; Phosphorylase; Phosphorylation; Post-translation; Proteomics; Stroke; Translation; ischemic stroke; posttranslational modifications; bioinformatics
• ISSN: 1990-7508; 1990-7516
• DOI: 10.1134/S199075082202007X

— The experimental data obtained by Simats, A. et al. ( Molecular and Cellular Proteomics , 2020, vol. 19, no. 12, pp. 1921–1936) were analyzed using a bioinformatic aproach. Original experimental results available in the ProteomeXchange database were obtained using a comprehensive multiomics approach to identify potential blood biomarkers in ischemic stroke in mice. The identification of peptides with post-translational modification (PTM) was performed by us using the raw data (accession code PXD016538). Only phosphorylation and deamination were considered as PTMs. Different combinations of data sets (ischemic tissue with intact tissue, ischemic tissue with control taken from mice after sham surgery, etc.) were compared both in terms of the ratio of abundance for the modified peptide to the unmodified variant and in terms of absolute values of abundance. The most probable change in the PTM levels was shown for 27 proteins, which included dynamin, glycogen phosphorylase and 70 kDa heat shock protein.