With the optimization of intact glycopeptide enrichment technology and the innovation of mass spectrometry (MS) detection technology, the glycoproteomics analysis has obtained abundant intact glycopeptide fragment ions and high-quality MS data. To help researchers and professionals resolve these MS data quickly, with high sensitivity and confidence, Creative Proteomics has developed a high-throughput complete N- and O-glycopeptide analysis platform that provides affordable glycoproteomics data analysis services using the appropriate data analysis software. Our service can resolve glycosylation sites as well as glycan structures.
Glycoproteomics analysis and corresponding popular software
Since glycosylation is macro and micro-heterogeneous and alters the dissociation behavior of glycopeptides, specific sample preparation, MS-based methods, and data analysis techniques are required. Among them, advanced MS-based glycoproteomics combined with powerful data mining algorithms is key element to characterize protein glycosylation. At present, there are a number of tools available for processing and analysis of glycoproteomics spectral data. Here, we outline some of the popular ones.
Fig. 1 Searching strategy of O-search for the interpretation of intact O-glycopeptide HCD spectra. (Liu, Luyao, et al., 2021)
| Tools for processing and analysis of glycoproteomics data. |
|---|
| Tools | Description |
| ArMone | A high-throughput complete N-glycopeptide analysis software for resolving N-glycosylation sites and glycan structures. |
| Byonic | A commercial search software that can search and identify intact N- and O-glycopeptides separately. |
| GPQuest | An algorithm for identifying site-specific intact N-glycopeptides based on HCD spectra. |
| pGlyco | A software for accurate analysis of N-glycan proteomics based on HCD spectra. |
| O-search | A method for the analysis of intact O-glycopeptide based on HCD spectra. |
| MSFragger-Glyco | A search tool for highly sensitive analysis of intact N- and O-glycopeptides. |
| O-Pair Search | A method for identifying O-glycopeptides and O-glycosylation sites based on HCD-EThcD paired spectra. |
| GlycReSoft | An algorithm for constructing combinatorial hypotheses glycan composition rules and combinations for N- and O- glycopeptides. |
Glycoproteomics data analysis service
We have years of experience in large-scale proteomics research and PTM proteomics analysis. Based on the research progress of bioinformatics analysis methods, we have established the industry-leading PTM proteomics analysis platform. We are able to analyze MS data from glycoproteomics studies with an effective and systematic bioinformatics workflow. Specifically, our bioinformatics analysis service consists of the following components:
- MS data quality control.
- Protein glycosylation identification.
- Quantitative glycoprotein analysis.
- Functional annotation of glycoproteins.
- Glycoprotein domain analysis.
- Glycoprotein subcellular localization.
- Glycoprotein network interaction analysis.
- Glycopropeptide motif analysis.
- Glycan structure analysis.
- Customized bioinformatics analysis.
| Available forms | Available images |
|---|
-Protein identification list
-Peptide identification quantitative list
-Quantitative list of modification site identification
-Peptide motif analysis list
-GO function list
-KEGG signaling pathway mapping table | -Hierarchically clustered heatmap
-Statistical mapping of modification sites
-Protein GO annotation.
-KEGG pathway annotation
-Conservative motif analysis
-Principal component analysis (PCA) | -COG/KOG analysis
-GO enrichment analysis
-KEGG enrichment analysis
-Protein interaction network analysis
-Protein subcellular localization |
Advantages of our bioinformatics platform
- Providing a variety of options for data management and analysis.
- Systematic bioinformatics analysis process traceability.
- Bioinformatics analysis for multiple types of data, mainly MS data.
- Bioinformatics analysis in a transparent and scalable way.
If you have any other questions about our services or need further assistance, please contact us. We are always ready to help you!
Reference
- Liu, Luyao, Hongqiang Qin, and Mingliang Ye. "Recent advances in glycopeptide enrichment and mass spectrometry data interpretation approaches for glycoproteomics analyses." Se pu= Chinese journal of chromatography 39.10 (2021): 1045-1054.
Our products and services are for research use only.
