Capstone End-to-End Metabolomics Project — Hands-on

In this capstone you will execute an end to end metabolomics or lipidomics project. Starting from a real or instructor provided dataset, you will design the analysis plan, process the raw files, run statistics and pathway analysis, and deliver a final report and presentation that demonstrate a complete, reproducible workflow.

Capstone: End-to-End Metabolomics Project

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Session Index

Session 1 — Project Scoping, Data Intake & Analysis Plan Session 2 — Processing, QC & Feature Tables Session 3 — Statistics, Pathways & Biomarkers Session 4 — Reporting, Files Packaging & Presentation

Session 1

Fee: Rs 8800

Project Scoping, Data Intake & Analysis Plan

Selecting or receiving the capstone dataset

own project data or instructor dataset LC MS MS or NMR style studies biological and technical context capture

Framing the biological question and hypotheses

primary and secondary endpoints group structure and covariates risks, limitations and assumptions

Designing the analysis plan and milestones

processing and QC steps checklist analysis timeline and deliverables definition of success criteria

Session 2

Fee: Rs 11800

Processing, QC & Feature Tables

Raw data conversion and initial checks

from vendor files to mzML style formats basic TIC, BPC and RT stability checks logging any anomalies

Peak detection, alignment and feature curation

choosing parameters based on QC runs filtering features by presence and RSD generating the final feature matrix

QC review, normalisation and batch correction

visual checks with PCA and QC trends applying chosen normalisation strategy documenting all preprocessing decisions

Session 3

Fee: Rs 14800

Statistics, Pathways & Biomarkers

Univariate and multivariate analysis for the project

group comparisons with multiple testing control PCA and supervised models for patterns feature ranking and candidate lists

Pathway and network level interpretation

mapping significant features to pathways enrichment and impact style readouts summarising affected biological processes

Optional biomarker or panel exploration

selecting robust candidate markers simple models and ROC style evaluation noting what is discovery versus verification

Session 4

Fee: Rs 18800

Reporting, Files Packaging & Presentation

Preparing the written report and figures

introduction, methods, results and discussion clear plots for QC, statistics and pathways tables for key features and pathways

Organising scripts, notebooks and data for reuse

notebooks or scripts with comments environment and requirements files folder structure and README

Short project presentation and feedback

slides summarising question, methods and findings discussion of challenges and next steps mentor feedback and refinement suggestions

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Capstone End-to-End Metabolomics Project Training | Full LC-MS/NMR Pipeline & Reporting

Capstone End-to-End Metabolomics Project — Hands-on