/ E-Alerts

Tools for generating and analyzing glycan microarray data

Akul Y. Mehta, Jamie Heimburg-Molinaro and Richard D. Cummings

Beilstein J. Org. Chem. 2020, 16, 2260–2271. https://doi.org/10.3762/bjoc.16.187

Cite the Following Article

Akul Y. Mehta, Jamie Heimburg-Molinaro and Richard D. Cummings

Beilstein J. Org. Chem. 2020, 16, 2260–2271. https://doi.org/10.3762/bjoc.16.187

How to Cite

Mehta, A. Y.; Heimburg-Molinaro, J.; Cummings, R. D. Beilstein J. Org. Chem. 2020, 16, 2260–2271. doi:10.3762/bjoc.16.187

Download Citation

Citation data can be downloaded as file using the "Download" button or used for copy/paste from the text window below.
Citation data in RIS format can be imported by all major citation management software, including EndNote, ProCite, RefWorks, and Zotero.

File format:

RIS

BibTeX

Include:

Citation for the article above

Citation and complete reference list for the article above

Download

TY  - JOUR
A1  - Mehta, Akul Y.
A1  - Heimburg-Molinaro, Jamie
A1  - Cummings, Richard D.
T1  - Tools for generating and analyzing glycan microarray data
JF  - Beilstein Journal of Organic Chemistry
PY  - 2020///
VL  - 16
SP  - 2260
EP  - 2271
SN  - 1860-5397
DO  - 10.3762/bjoc.16.187
PB  - Beilstein-Institut
JA  - Beilstein J. Org. Chem.
UR  - https://doi.org/10.3762/bjoc.16.187
KW  - data analysis
KW  - glycan binding
KW  - glycan microarray
KW  - glycomics
KW  - informatics
N2  - Glycans are one of the major biological polymers found in the mammalian body. They play a vital role in a number of physiologic and pathologic conditions. Glycan microarrays allow a plethora of information to be obtained on protein–glycan binding interactions. In this review, we describe the intricacies of the generation of glycan microarray data and the experimental methods for studying binding. We highlight the importance of this knowledge before moving on to the data analysis. We then highlight a number of tools for the analysis of glycan microarray data such as data repositories, data visualization and manual analysis tools, automated analysis tools and structural informatics tools.
ER  -

Presentation Graphic

Picture with graphical abstract, title and authors for social media postings and presentations.
Format: PNG	Size: 7.8 MB	Download

Citations to This Article

Up to 20 of the most recent references are displayed here.

Scholarly Works

Heimburg-Molinaro, J.; Mehta, A. Y.; Tilton, C. A.; Cummings, R. D. Insights Into Glycobiology and the Protein-Glycan Interactome Using Glycan Microarray Technologies. Molecular & cellular proteomics : MCP 2024, 23, 100844. doi:10.1016/j.mcpro.2024.100844
Sokolov, P.; Evsegneeva, I.; Karaulov, A.; Sukhanova, A.; Nabiev, I. Allergen Microarrays and New Physical Approaches to More Sensitive and Specific Detection of Allergen-Specific Antibodies. Biosensors 2024, 14, 353. doi:10.3390/bios14070353
Chittum, J. E.; Thompson, A.; Desai, U. R. Glycosaminoglycan microarrays for studying glycosaminoglycan-protein systems. Carbohydrate polymers 2024, 335, 122106. doi:10.1016/j.carbpol.2024.122106
Roy, R. Cancer cells and viruses share common glycoepitopes: exciting opportunities toward combined treatments. Frontiers in immunology 2024, 15, 1292588. doi:10.3389/fimmu.2024.1292588
Mehta, A. Y.; Tilton, C. A.; Muerner, L.; von Gunten, S.; Heimburg-Molinaro, J.; Cummings, R. D. Reusable glycan microarrays using a microwave assisted wet-erase (MAWE) process. Glycobiology 2023, 34. doi:10.1093/glycob/cwad091
Harvey, D. J. Analysis of carbohydrates and glycoconjugates by matrix-assisted laser desorption/ionization mass spectrometry: An update for 2019-2020. Mass spectrometry reviews 2023, 42, 1984–2206. doi:10.1002/mas.21806
Aoki-Kinoshita, K. F. Reference Module in Life Sciences - Glycan Bioinformatics: Informatics Methods for Understanding Glycan Function. Encyclopedia of Cell Biology; Elsevier, 2023; pp 516–524. doi:10.1016/b978-0-12-821618-7.00002-x
Sasmal, A.; Khan, N.; Khedri, Z.; Kellman, B. P.; Srivastava, S.; Verhagen, A.; Yu, H.; Bruntse, A. B.; Diaz, S.; Varki, N.; Beddoe, T.; Paton, A. W.; Paton, J. C.; Chen, X.; Lewis, N. E.; Varki, A. Simple and practical sialoglycan encoding system reveals vast diversity in nature and identifies a universal sialoglycan-recognizing probe derived from AB5 toxin B subunits. Glycobiology 2022, 32, 1101–1115. doi:10.1093/glycob/cwac057
Wang, C.; Kang, H.; Tan, M.; Cong, J.; Su, D.; Li, X.; Chen, Y. Structural Insight into Terminal Galactose Recognition by Two Non-HBGA Binding GI.3 Noroviruses. Journal of virology 2022, 96, e0042022. doi:10.1128/jvi.00420-22
Klamer, Z. L.; Harris, C. M.; Beirne, J. M.; Kelly, J. E.; Zhang, J.; Haab, B. B. CarboGrove: a resource of glycan-binding specificities through analyzed glycan-array datasets from all platforms. Glycobiology 2022, 32, 679–690. doi:10.1093/glycob/cwac022
Aoki-Kinoshita, K. F.; Lisacek, F.; Karlsson, N.; Kolarich, D.; Packer, N. H. GlycoBioinformatics. Beilstein journal of organic chemistry 2021, 17, 2726–2728. doi:10.3762/bjoc.17.184
Sasmal, A.; Khan, N.; Khedri, Z.; Kellman, B. P.; Srivastava, S.; Verhagen, A.; Yu, H.; Bruntse, A. B.; Diaz, S.; Varki, N.; Beddoe, T. C.; Paton, A. W.; Paton, J. C.; Chen, X.; Lewis, N. E.; Varki, A. Simple and practical sialoglycan encoding system reveals vast diversity in nature and identifies a universal sialoglycan-recognizing probe derived from AB5 toxin B subunits. Cold Spring Harbor Laboratory 2021. doi:10.1101/2021.05.28.446191
Paiardi, G.; Milanesi, M.; Wade, R. C.; D'Ursi, P.; Rusnati, M. A Bittersweet Computational Journey among Glycosaminoglycans. Biomolecules 2021, 11, 739. doi:10.3390/biom11050739

Explore citations to this article at

Back To Article

Other Beilstein-Institut Open Science Activities

aromatic	the word “aromatic”
aromatic aldehyde	the word “aromatic” OR “aldehyde”
+aromatic +aldehyde	both words “aromatic” AND “aldehyde”
+aromatic -aldehyde	the word “aromatic” but NOT “aldehyde”
“aromatic aldehyde”	the exact phrase “aromatic aldehyde”
benz*	words which begin with “benz”, such as “benzene” or “benzyl”
benz*yl	words that begin with “benz” and end with “yl”, such as “benzyl” or “benzoyl”
benzyl~	words that are close to the word “benzyl”, such as “benzoyl” (i.e., fuzzy search)