N-glycoproteomics of induced pluripotent stem cells, embryonic stem cells, and parental cells
We tried to understand the N-glycoproteom molecular differences between induced pluripotent stem cells and embryonic stem cells. This is important to improve the reprograming process and induced pluripotency in the context of post translational protein N-glycosylation
Sample Processing Protocol
Hydrazide chemistry has been used to enrich the N-glycopeptides.
Data Processing Protocol
We used MaxQuant tool for dataprocssesing. We used enzyme trypsin, two missed cleavages, peptide length of seven amino acids, false discovery rate (FDR) of 0.01, variable modifications of oxidation (M) and acetylation (protein N-terminal), and fixed modification of carbamidomethyl (C) as search parameters. In addition, we set the variable modification deamidation (NQ) for the N-glycopeptides identification.
Sudhir PR, Kumari MP, Hsu WT, Chen CH, Kuo HC, Chen CH. Integrative omics connects N-glycoproteome-wide alterations with pathways and regulatory events in induced pluripotent stem cells. Sci Rep. 2016 Nov 3;6:36109 PubMed: 27808266