GC–MS Workflows — Derivatization & Deconvolution — Hands-on

Build end-to-end GC–MS metabolomics competence, from choosing columns and temperature programs to optimizing derivatization reactions and performing deconvolution of complex chromatograms. This module focuses on volatile and semi-volatile metabolites, derivatization strategies, practical acquisition setups and data quality checks that feed into downstream annotation and quantitation pipelines.

GC–MS Workflows — Derivatization & Deconvolution

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Session Index

Session 1 — GC–MS Principles & Hardware for Metabolomics Session 2 — Derivatization Chemistry & Workflows Session 3 — Acquisition, Deconvolution & Data Quality Session 4 — Mini Capstone: GC–MS Method & Deconvolution Plan

Session 1

Fee: Rs 8800

GC–MS Principles & Hardware for Metabolomics

Gas chromatography fundamentals for metabolomics

volatility and thermal stability capillary columns and stationary phases temperature programs and ramps

Mass spectrometry and EI ionization basics

electron ionization (EI) quadrupole / TOF analyzers scan speed and mass range

GC–MS system setup and maintenance

inlet liners and syringes leak checks and tuning source cleaning and performance logs

Session 2

Fee: Rs 11800

Derivatization Chemistry & Workflows

Why derivatization is needed in metabolomics

increasing volatility and stability improved peak shape and response functional group targeting

Common derivatization chemistries

oximation and methoximation silylation (MSTFA / BSTFA) alkylation and acylation examples

Optimizing derivatization workflows

reaction time and temperature solvent and reagent stability minimizing artefacts and degradation

Session 3

Fee: Rs 14800

Acquisition, Deconvolution & Data Quality

Acquisition methods and injection strategies

split vs splitless injection full scan, SIM and MS/MS options retention time locking concepts

Peak detection and deconvolution concepts

co-elution and overlapping peaks mass spectral deconvolution library matching (NIST etc.)

QC metrics and troubleshooting GC–MS data

retention time drift sensitivity loss and contamination blank and QC chromatogram review

Session 4

Fee: Rs 18800

Mini Capstone: GC–MS Method & Deconvolution Plan

Designing a GC–MS method for a metabolomics use case

clinical, nutrition or microbial study

Injection order, QC layout and derivatization schedule

blank, QC and calibration placement batching and drift control sample stability planning

Deliverables: GC–MS method, derivatization SOP & QC checklist

temperature and timing program reagent and column details deconvolution and review workflow

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GC–MS Workflows — Derivatization & Deconvolution Training | Methods, Chemistry & Deconvolution

GC–MS Workflows — Derivatization & Deconvolution — Hands-on