Jiechen Shen's research while affiliated with Northwest University and other places

... In addition, different MS parameters were also evaluated to improve the identification of CF glycoproteins. Examples include the combination of higher-energy collisional dissociation (HCD) and electron transfer dissociation (ETD) [21], the use of stepped normalized collision energy (stepped NCE) [22,23], and the reference of Y1F/Y1 ratios at 20% and lower HCD energies [24]. ...

... Yang et al. compared the HILIC column with the MAX column for both N-and O-glycopeptides, and found that the identification of N-and O-glycopeptides could be improved with the MAX column compared with the HILIC column [21]. Xin et al. simply compared the enrichment efficiency of the MAX and HILIC columns, concluding that the HILIC column had advantages in complex glycan structure identification, while the MAX column was advantageous in high mannose interpretation [22]. However, a systematic comparison and in-depth analysis of the two enrichment methods are still lacking. ...

... Glycan identity is an important aspect of glycoprotein analysis because microheterogeneity (the cohort of all the different glycan structures bound to a particular N-glycosylation sequon, (30)) influences glycoprotein structures and functions (31). The impact of microheterogeneity on HDX-MS analyses of glycoproteins is not presently known because detecting and identifying glycopeptides with their glycans still covalently bound requires advanced MS/MS methods and appropriate data processing for detection and assignment of glycans (32,33,34,35). SARS-CoV-2 Spike glycoprotein has 22 N-glycosylation sequons per monomer and several publications describe spike's microheterogeneity (32,36,37,38). ...

... The desalted peptides from the mouse brain (or the HILIC column flow-through solutions) were enriched by the MAX column as previously described [25,26]. Briefly, the peptides eluted from the C18/HLB column (or the HILIC column flow-through solutions) were diluted with 100% ACN and 10% TFA to a final concentration of 95% ACN/1% TFA. ...

... Core I and II O-glycan structures were also identi ed. Liquid chromatography tandem mass spectrometry (MS/MS) and collision-induced dissociation MS/MS revealed a large number of glycopeptides, glycoproteins, and more than 773 site-speci c N-glycan structures in hSP [14][15][16]. Based on our aqueous ammonium hydroxide-catalyzed one-pot method to simultaneously release and label N/O-glycans from hSP, a total of 17 N-glycan and 21 O-glycan isomer structures were observed by electrospray ionization (ESI)-MS, hydrophilic interaction liquid chromatography (HILIC)-UV-ESI-MS/MS, and reverse-phase-high performance liquid chromatography (RP-HPLC)-MS/MS [17]. ...

... which could affect the quality of the ejaculated sperm [6,7,11,12,18,20,21]. In addition, the posttranslational modifications (phosphorylation, glycosylation, etc.) of human sperm proteome are being explored [20,22,23]. Antibiotics are one of the most widely used clinical drugs that resist pathogenic microorganisms [24]. ...

... Aberrant glycosylation has been recognized as a fundamental feature of many cancers and plays an important role in key pathological steps in tumor development and progression [5]. We previously performed precision N-glycoproteomic analysis on both ICC and HCC tumors as well as paracancer tissues to investigate their aberrant site-specific N-glycosylation [26], and found that partial bisecting GlcNAc structures were commonly elevated The grayscale values were measured from the western blotting data with Image J. Analyses were performed in triplicates for each condition. Data are presented as mean ± SEM; P-values were determined by unpaired two-tailed t-test (A and B) or One-way ANOVA (C). ...

... For those spectra in which the peptides are confidently identified yet no matched glycan can be found from the glycan database, we perform de novo sequencing to identify potentially new N-linked glycans (Fig. 1c). Several glycan de novo sequencing tools have been proposed in previous studies 14,22,23 . For instance, pGlyco3 14 tried to find a modification on Hex, e.g. ...

... Here, we could demonstrate the positive effect of an increase in the level of FA concentration in promoting the expression of FOLR1 mRNA. Recently, Jia et al. (37) reported that elevated core-fucosylation of FOLR1 can enhance the uptake of folate to the cell to induce epithelial-mesenchymal transition which triggers metastasis and invasion of hepatocellular carcinoma. This finding suggests that FA concentration might not be the only factor to enhance FOLR1, but also post-translational modifications of the protein should be considered and PECspecific glycoproteomic-based studies should be performed. ...

... * Shisheng Sun suns@nwu.edu.cn 1 College of Life Sciences, Northwest University, Xi'an, Shaanxi Province 710069, People's Republic of China denatured, reduced, alkylated, and digested into peptides according to our previously described methods [15,16]. ...