Glycoproteomics Quantification — Label-Free & Isobaric — Hands-on

Learn how to plan, run and interpret quantitative glycoproteomics studies using both label-free and isobaric workflows. This module walks through experimental design, LFQ and iBAQ style label-free quantification, TMT/iTRAQ based multiplexing, normalization, batch correction and data visualization for confident biological conclusions.

Glycoproteomics Quantification — Label-Free & Isobaric

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Session Index

Session 1 — Quantitative Glycoproteomics Designs & Controls Session 2 — Label-Free Quantification (LFQ/iBAQ) Session 3 — Isobaric Quantification (TMT/iTRAQ) Session 4 — Mini Capstone: Quantitative Glycoproteomics Comparison

Session 1

Fee: Rs 8800

Quantitative Glycoproteomics Designs & Controls

Study designs for quantitative glycoproteomics

case vs control and time course biological vs technical replicates blocking and randomization

Choosing between label-free and isobaric approaches

sample numbers and depth instrument time constraints precision vs flexibility

Controls, standards and reference channels

QC pools and references spike in glycoprotein standards bridging across batches

Session 2

Fee: Rs 11800

Label-Free Quantification (LFQ/iBAQ)

MS1 intensity based label-free concepts

peak picking and integration feature alignment across runs match between runs ideas

LFQ and iBAQ type metrics for glycopeptides

relative vs approximate absolute handling charge states and isotopes intensity transforms (log2)

Normalization and missing value strategies

global vs local scaling median/quantile approaches imputation options for glyco data

Session 3

Fee: Rs 14800

Isobaric Quantification (TMT/iTRAQ)

Designing TMT/iTRAQ based glycoproteomics experiments

channel layouts and multiplexing reference channels and bridging batching large cohorts

Reporter ion based quantification and ratio compression

reporter extraction windows coisolation and interference MS3 and SPS concepts

Normalization and batch correction for isobaric data

within and between run scaling using reference channels visual QC of channel performance

Session 4

Fee: Rs 18800

Mini Capstone: Quantitative Glycoproteomics Comparison

Build a small quantitative workflow on example glyco datasets

label-free and/or TMT style data

Generate differential glycoprotein and glycoform summaries

log2 fold changes and p values volcano and heatmap plots linking results to biology or CQAs

Deliverables and documentation set

processed quant tables plots for a short report notes on normalization and batch handling

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Glycoproteomics Quantification — Label-Free & Isobaric Training | LFQ, TMT & Data Analysis

Glycoproteomics Quantification — Label-Free & Isobaric — Hands-on