Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Protein Glycosylation01:25

Protein Glycosylation

9.9K
Glycosylation, the most common post-translational modification for proteins, serves diverse functions. Adding sugars to proteins makes the proteins more resistant to proteolytic digestion. Glycosylated proteins can act as markers and receptors to promote cell-cell adhesion. Additionally, they have many essential quality control functions in the cell, such as correct protein folding and facilitating transport of misfolded proteins to the cytosol, which can be degraded.
Glycosylation occurs in...
9.9K
Glycolysis01:23

Glycolysis

1.8K
Glycolysis, the Embden-Meyerhof pathway, is a central metabolic pathway involved in glucose catabolism. It is highly conserved across most organisms, reflecting its fundamental role in cellular energy production. This process occurs in the cytoplasm and can function both in the presence and absence of oxygen, making it versatile for various organisms and environmental conditions.Stages of GlycolysisGlycolysis is a ten-step pathway that converts glucose into pyruvate, generating a net gain of...
1.8K
Glycosaminoglycans01:23

Glycosaminoglycans

7.3K
Glycosaminoglycans (GAGs), also known as mucopolysaccharides, are long and linear polymers comprising of specific repeating disaccharides - the amino sugar that can be N-acetylglucosamine or N-acetylgalactosamine, and a uronic acid that is usually glucuronic acid or iduronic acid.
GAGS are found in the extracellular matrix of vertebrates, invertebrates, and bacteria. Due to their polar nature they attract water, and serve as excellent lubricants or shock absorbers in an animal body.
Hyaluronic...
7.3K
Oligosaccharide Assembly01:24

Oligosaccharide Assembly

3.7K
Protein glycosylation starts in the ER lumen and continues in the Golgi apparatus. Glycosyltransferases catalyze the addition of sugar molecules or glycosylation of proteins. Usually, these enzymes add sugars to the hydroxyl groups of selected serine or threonine residues to form O-linked glycans or the amino groups of asparagine residues to form N-linked glycans. Different positions on the same polypeptide chain can contain differently linked glycans.
Multiple sugar molecules that may or may...
3.7K
What is Glycolysis?00:56

What is Glycolysis?

178.9K
Overview
Cells make energy by breaking down macromolecules. Cellular respiration is the biochemical process that converts "food energy" (from the chemical bonds of macromolecules) into chemical energy in the form of adenosine triphosphate (ATP). The first step of this tightly regulated and intricate process is glycolysis. The word glycolysis originates from the Latin glyco (sugar) and lysis (breakdown). Glycolysis serves two main intracellular functions: generating ATP and generating...
178.9K
Biosynthesis of Polysaccharides01:26

Biosynthesis of Polysaccharides

746
Polysaccharides such as glycogen and starch are synthesized from nucleoside diphosphate sugars, primarily uridine diphosphate glucose (UDPG) and adenosine diphosphate glucose (ADPG). These activated glucose donors act as key intermediates in carbohydrate metabolism and biosynthesis. UDPG primarily involves glycogen synthesis in animals and many bacteria, while ADPG plays a fundamental role in starch synthesis in plants and certain bacteria.UDPG is formed when glucose-1-phosphate reacts with...
746

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Dual human milk oligosaccharide-fibre utilisation is a selection cue for the weaning gut microbiome.

Nature communications·2026
Same author

Degradation of mucin <i>O</i>-glycans by a human gut symbiont requires a complex enzyme repertoire and promotes colonization.

bioRxiv : the preprint server for biology·2026
Same author

The butyrate-producing Gram-positive human gut bacterium, Hoskinsella mucinilytica, selectively targets host mucin N-acetylhexosamines.

The Journal of biological chemistry·2026
Same author

Glycosphingolipids in human abdominal leiomyosarcoma and liposarcoma.

The Journal of biological chemistry·2026
Same author

Mass spectrometric profiling reveals alterations in N-Glycans and O-Glycans in Tay-Sachs disease under Autophagy-Induced conditions.

Glycoconjugate journal·2025
Same author

Update and New Implementation of the MIRAGE Reporting Guidelines for Mass Spectrometry Experiments in Glycoscience.

Molecular & cellular proteomics : MCP·2025
Same journal

Machine Learning-Assisted Nanopore for Enhanced Fingerprinting Analysis of Functional Glycans.

Analytical chemistry·2026
Same journal

Correction to "Maleylpyruvic Acid-Inducible Gene Expression System and Its Application for the Development of Gentisic Acid Biosensor".

Analytical chemistry·2026
Same journal

Computer-Aided Rational Hapten Design for Broad-Spectrum Monoclonal Antibody Development against Anthraquinones and Its Application in Lateral Flow Immunoassay.

Analytical chemistry·2026
Same journal

One-Step Chemoenzymatic Labeling and Oxime-Reversible Enrichment for O-GlcNAcylation Profiling under Oxidative Stress.

Analytical chemistry·2026
Same journal

Acid/NIR Dual-Responsive Nanoplatform with AND Logic-Gated Controlled Nitric Oxide Release for Companion Theranostics of Tumors.

Analytical chemistry·2026
Same journal

Multicharged Foldable Plasma Membrane Probes for Precise Cancer Cell Discrimination and Fluorescence-Guided Surgery.

Analytical chemistry·2026
See all related articles

Related Experiment Video

Updated: Feb 23, 2026

Hierarchical and Programmable One-Pot Oligosaccharide Synthesis
09:56

Hierarchical and Programmable One-Pot Oligosaccharide Synthesis

Published on: September 6, 2019

7.3K

Glycoforest 1.0.

Oliver Horlacher1,2, Chunsheng Jin3, Davide Alocci1,2

  • 1Proteome Informatics Group, SIB Swiss Institute of Bioinformatics , Geneva, 1211, Switzerland.

Analytical Chemistry
|September 14, 2017
PubMed
Summary
This summary is machine-generated.

Glycoforest 1.0 is a new algorithm that automates glycan sequencing from mass spectrometry data, improving efficiency and accuracy in glycomics research. This software helps analyze complex glycan structures, overcoming manual sequencing limitations.

More Related Videos

Bioinformatics Resources for the Study of Glycan-Mediated Protein Interactions
11:21

Bioinformatics Resources for the Study of Glycan-Mediated Protein Interactions

Published on: January 20, 2022

4.1K
Glycan Node Analysis: A Bottom-up Approach to Glycomics
11:36

Glycan Node Analysis: A Bottom-up Approach to Glycomics

Published on: May 22, 2016

11.2K

Related Experiment Videos

Last Updated: Feb 23, 2026

Hierarchical and Programmable One-Pot Oligosaccharide Synthesis
09:56

Hierarchical and Programmable One-Pot Oligosaccharide Synthesis

Published on: September 6, 2019

7.3K
Bioinformatics Resources for the Study of Glycan-Mediated Protein Interactions
11:21

Bioinformatics Resources for the Study of Glycan-Mediated Protein Interactions

Published on: January 20, 2022

4.1K
Glycan Node Analysis: A Bottom-up Approach to Glycomics
11:36

Glycan Node Analysis: A Bottom-up Approach to Glycomics

Published on: May 22, 2016

11.2K

Area of Science:

  • Biochemistry
  • Computational Biology
  • Analytical Chemistry

Background:

  • Tandem mass spectrometry (MS/MS) coupled with liquid chromatography is crucial for analyzing complex biological mixtures, especially in glycomics.
  • Manual sequencing of glycan structures from MS/MS spectra is time-consuming and a bottleneck due to the lack of high-throughput software and direct structural templates.
  • Developing automated glycan sequencing software is essential for advancing glycomics research and understanding biological structures.

Purpose of the Study:

  • To introduce Glycoforest 1.0, a novel partial de novo algorithm designed for automated glycan sequencing using MS/MS spectra.
  • To address the limitations of manual glycan sequencing and provide a high-throughput solution for glycomics data analysis.
  • To facilitate the identification and annotation of glycan structures in complex biological samples.

Main Methods:

  • Development of Glycoforest 1.0, a partial de novo algorithm for sequencing glycans from MS/MS data.
  • Testing Glycoforest 1.0 on O-linked glycomes from human gastric and salmon mucosa.
  • Validation of algorithm performance against manually annotated MS/MS spectra.

Main Results:

  • Glycoforest 1.0 successfully generated human-validated glycan structures for 92% of test cases.
  • The correct glycan structure was identified as the top match in 70% and within the top 3 matches in 83% of cases.
  • The algorithm annotated 1532 previously unannotated MS/MS spectra, with manual checks confirming 50 additional annotations missed during manual review.

Conclusions:

  • Glycoforest 1.0 significantly enhances the efficiency and accuracy of glycan structure sequencing from MS/MS data.
  • The algorithm effectively automates a critical step in glycomics, reducing reliance on manual annotation.
  • Glycoforest 1.0 has the potential to accelerate discoveries in glycomics by enabling deeper analysis of complex glycan datasets.