MS Fragmentation for Glycans — HCD ETD EThcD — Hands-on

Gain practical intuition for how glycans and glycopeptides fragment in the mass spectrometer. This module explains oxonium ions, glycosidic vs cross ring cleavages and how HCD, ETD and EThcD complement each other for site specific glyco analysis and confident structural assignments.

MS Fragmentation for Glycans — HCD ETD EThcD

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Session Index

Session 1 — Fundamentals of Glycan & Glycopeptide MS/MS Session 2 — HCD Spectra, Oxonium Ions & Cross Ring Cleavage Session 3 — ETD / EThcD for Site Specific Glycoproteomics Session 4 — Mini Capstone: Spectrum Interpretation & Annotation

Session 1

Fee: Rs 8800

Fundamentals of Glycan & Glycopeptide MS/MS

Ionization and charge state behavior of glycans and glycopeptides

ESI overview positive vs negative mode adduct formation

Glycosidic vs cross ring cleavages: concept and nomenclature

Domon Costello B / Y ions A / X cross ring ions peptide b / y ions recap

Instrument types and fragmentation options for glyco work

ion trap and Orbitrap beam type CID vs HCD ETD / EThcD capability

Session 2

Fee: Rs 11800

HCD Spectra, Oxonium Ions & Cross Ring Cleavage

HCD behavior of glycans and glycopeptides

stepwise glycosidic loss energy and charge effects in source decay awareness

Diagnostic oxonium ions and their interpretation

HexNAc and Hex ions Neu5Ac related ions fucose and sulfation hints

Cross ring ions for linkage and branching clues

2,4 A and 0,2 A examples distinguishing isomers limits of information content

Session 3

Fee: Rs 14800

ETD / EThcD for Site Specific Glycoproteomics

Principles of ETD fragmentation

electron transfer concept c / z ion series preserving labile glycans

EThcD and hybrid methods for combined information

ETD plus supplemental HCD peptide backbone plus glycan fragments benefits for site localization

Choosing fragmentation strategy for different questions

released glycan vs glycopeptide focus discovery vs targeted assays instrument time constraints

Session 4

Fee: Rs 18800

Mini Capstone: Spectrum Interpretation & Annotation

Hands on interpretation of provided HCD and EThcD spectra

stepwise assignment of oxonium, glycan and peptide ions

Building small annotation tables for key spectra

m/z, intensity and ion type linking to proposed structures evidence level notes

Deliverables and documentation

annotated spectrum images ion assignment tables short interpretation summary

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MS Fragmentation for Glycans — HCD ETD EThcD Training | Oxonium Ions & Structural Interpretation

MS Fragmentation for Glycans — HCD ETD EThcD — Hands-on