Pathway Mapping, Enrichment & Topology Analysis — Hands-on

Learn how to convert processed metabolomics data into pathway and network level biological insights. You will practice metabolite identifier mapping, perform pathway enrichment, work with topology-based impact ideas and generate clear visualizations ready for manuscripts and reports.

Pathway Mapping, Enrichment & Topology Analysis

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Session Index

Session 1 — Pathway Databases & Metabolite Mapping Session 2 — Over Representation & Ranked Enrichment Session 3 — Topology, Impact Scores & Networks Session 4 — Visualisation, Reporting & Case Workflows

Session 1

Fee: Rs 8800

Pathway Databases & Metabolite Mapping

Overview of pathway and network resources

KEGG and Reactome style maps BioCyc and SMPDB concepts organism specific coverage

Metabolite identifiers and cross references

HMDB, ChEBI and KEGG IDs InChIKey and synonyms name ambiguity and harmonisation

Mapping feature tables to pathway entities

resolving adducts and neutral masses handling isomers and unknowns creating mapping tables for analysis

Session 2

Fee: Rs 11800

Over Representation & Ranked Enrichment

Pathway over representation analysis basics

foreground versus background sets Fisher or hypergeometric intuition multiple testing and FDR control

Rank based enrichment concepts for metabolomics

ranking by effect size or p value running sum style thinking enrichment plots and leading edge ideas

Comparing and combining enrichment readouts

consistency across methods pathway ranking and prioritisation summary tables for key pathways

Session 3

Fee: Rs 14800

Topology, Impact Scores & Networks

Pathway graphs and node level properties

metabolites as nodes, reactions as edges degree and betweenness intuition hubs and choke points

Impact style scoring ideas for pathways

combining fold change and topology weighting central versus peripheral nodes interpreting impact alongside p values

From pathway lists to network level views

building simple metabolite interaction networks overlaying changes on graphs identifying subnetworks of interest

Session 4

Fee: Rs 18800

Visualisation, Reporting & Case Workflows

Visualising pathway results for manuscripts

dot plots and barplots of enrichment heatmaps of key pathway members annotated pathway diagrams

Summarising pathway and network findings

clear tables of pathways, scores and q values linking to biological questions noting caveats and coverage limits

Reproducible pathway analysis workflows

recording mapping and background choices saving parameter sets and scripts checklists for future metabolomics studies

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Pathway Mapping, Enrichment & Topology Analysis Training | Metabolomics Pathway Interpretation

Pathway Mapping, Enrichment & Topology Analysis — Hands-on