Capstone — Integrated Systems Biology Project — Hands-on

Apply everything you have learned across systems biology, network modeling and pathway informatics in a guided capstone project. You will scope a problem, assemble data, construct and analyse networks and models, run targeted simulations and produce a coherent report and presentation that connects methods to biological insight and decision support.

Capstone — Integrated Systems Biology Project

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Session Index

Session 1 — Project Scoping & Data Assembly Session 2 — Network, Pathway & Model Build Sprint Session 3 — Analysis, Validation & Storyline Session 4 — Final Capstone Packaging & Presentation

Session 1

Fee: Rs 8800

Project Scoping & Data Assembly

Define the capstone question and systems level goals

disease, pathway or network focus mechanistic or predictive objectives scope, assumptions and success criteria

Select and assemble relevant datasets and resources

omics matrices and annotations (concept) networks, pathways and knowledge bases metadata and phenotype information

Project plan and reproducible workspace setup

R or Python notebook project skeleton data folders and configuration files timeline and milestone checklist

Session 2

Fee: Rs 11800

Network, Pathway & Model Build Sprint

Construct core networks and pathway views for the project

PPI and regulatory networks around key entities pathway diagrams with highlighted modules enrichment or topology style scores

Develop a simple quantitative or constraint based model (concept level)

choice of ODE, FBA or hybrid style outline state variables, reactions and constraints baseline parameter or flux assumptions

Implementation toolkit integration in notebooks and files

R or Python for networks and basic models Cytoscape or similar for layout exports SBML or structured formats where applicable

Session 3

Fee: Rs 14800

Analysis, Validation & Storyline

Analyse network and model behaviour under key scenarios

baseline and perturbed simulations simple scans for sensitivity and robustness summary figures and tables for main findings

Cross check against data, literature or qualitative expectations

alignment with known pathways and phenotypes gaps, limitations and uncertainty notes hypothesis and mechanism statements

Build a coherent biological and systems level storyline

from question to methods to insight link figures to narrative paragraphs outline for report and slide deck

Session 4

Fee: Rs 18800

Final Capstone Packaging & Presentation

Prepare a publication style report and slide deck

Theory + Practical

Organise code, data and models for reproducibility and review

final R or Python notebook bundle network and model exports in standard formats readme and environment description files

Deliverables: capstone notebook, figures, report & presentation

integrated analysis notebook and scripts PDF/HTML report and slide deck file archive ready project folder for future use

PDF

Capstone — Integrated Systems Biology Project Training | End-to-End Systems Biology Workflow

Capstone — Integrated Systems Biology Project — Hands-on