Pathway Enrichment & Metabolic Network Mapping — Hands-on

Learn how to move from statistically significant metabolite and lipid features to pathway level and network level biological interpretation. This module focuses on mapping identifiers, running pathway enrichment, applying topology aware methods and building metabolic networks so that your metabolomics results translate into clear, defensible biological stories.

Pathway Enrichment & Metabolic Network Mapping

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Session Index

Session 1 — Pathway Databases & Metabolite Mapping Session 2 — Enrichment Methods & Significance Session 3 — Topology, Networks & Multi Omics Context Session 4 — Mini Capstone: From Features to Pathways

Session 1

Fee: Rs 8800

Pathway Databases & Metabolite Mapping

Pathway resources for metabolomics and lipidomics

KEGG, Reactome, BioCyc SMPDB and small molecule maps strengths and limitations

Identifier cleanup and cross mapping

InChIKey, HMDB, KEGG IDs ChEBI, PubChem and synonyms resolving duplicates and isomers

Preparing feature lists for enrichment tools

selecting significant features fold change and p value thresholds background sets and universes

Session 2

Fee: Rs 11800

Enrichment Methods & Significance

Over representation and enrichment analysis basics

contingency tables and p values hypergeometric and Fisher tests multiple testing corrections

MetaboAnalyst and similar tools in practice

upload formats and mapping choosing organism and libraries reading enrichment result tables

Communicating significance and robustness

q values and adjusted p values effect size and hit ratios sensitivity analyses and caveats

Session 3

Fee: Rs 14800

Topology, Networks & Multi Omics Context

Pathway topology and impact scores

node centrality concepts degree, betweenness, closeness topology based pathway impact

Building and visualizing metabolic networks

metabolite reaction graphs Cytoscape and similar tools node attributes and styling

Placing metabolomics into multi omics context

linking genes, proteins and metabolites overlaying transcriptomics or proteomics network modules and sub pathways

Session 4

Fee: Rs 18800

Mini Capstone: From Features to Pathways

Constructing a full pathway analysis workflow

from feature table to enriched pathways

Summarizing results as clear biological stories

key pathways and direction of change linking to figures and tables limitations and alternative explanations

Deliverables: pathway table, network figure & methods text

ranked pathway enrichment table exported network visualization ready to edit methods paragraph

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Pathway Enrichment & Metabolic Network Mapping Training | Pathways, Topology & Networks

Pathway Enrichment & Metabolic Network Mapping — Hands-on