BIO HELP LEARNING COURSE

Cancer Genomics with TCGA and GEO

Analyse public cancer data from TCGA and GEO: tumour vs. normal expression, somatic mutations, survival analysis and biomarker discovery.

Genomics

◉ Intermediate◷ 15 Hours▣ Certificate Included

Course Information

Everything you need to know before enrolling.

LANGUAGEEnglish

Pre-Register for Live Training

Registration for the next live batch opens soon. Pre-register and our team will contact you with the batch dates, fees and registration link as soon as it opens.

Live online classes
Group & college batches
Certificate on completion

Pre-register for live training → Ask on WhatsApp Or email [email protected]

▤ Overview ☷ Curriculum ♙ Instructor ☆ Reviews ▣ FAQs

▤

About This Course

Large public projects such as TCGA have profiled thousands of tumours. This course shows you how to use that data to ask real cancer biology questions without generating new data.

You download and organize TCGA and GEO datasets, compare tumour and normal expression, explore somatic mutations, run survival analysis, identify candidate biomarkers and present your findings.

Who this course is for

Students and researchers in cancer biology
Learners who want research projects using public data
Clinicians and scientists exploring biomarker discovery

Prerequisites

RNA-Seq Data Analysis or WES Analysis (or equivalent), and basic R.

Final project

Compare tumour and normal samples for one cancer type in TCGA and present candidate biomarkers with survival evidence.

◎

What You’ll Learn

✓Navigate TCGA, GDC and GEO cancer datasets

✓Download and organize expression and clinical data

✓Run tumour vs. normal differential expression

✓Explore somatic mutation data and mutation landscapes

✓Perform Kaplan–Meier and Cox survival analysis

✓Identify and evaluate candidate biomarkers

⌘

Tools & Technologies

TCGAGDC PortalGEOcBioPortalRTCGAbiolinksDESeq2maftoolssurvivalggplot2

Course Curriculum

What you will learn, module by module

10 modules 15 hours of training 40 topics Certificate on completion

- Hallmarks of cancer and the genome
- Somatic vs. germline variation
- Major cancer genomics projects
- Types of cancer omics data
- The GDC data portal
- Browsing studies in cBioPortal
- Clinical and molecular data types
- Choosing a cancer type and question
- Querying and downloading data in R
- Expression and clinical tables
- Organizing a cancer project
- Data quality checks
- Preparing counts and sample groups
- Differential expression with DESeq2
- Volcano plots and heatmaps
- Interpreting cancer-related genes
- Finding cancer studies in GEO
- Microarray vs. RNA-seq studies
- Validating findings in an independent dataset
- Combining evidence
- MAF files explained
- Mutation landscapes with maftools
- Oncoplots and mutation signatures
- Driver genes
- Kaplan–Meier curves
- Log-rank tests
- Cox proportional hazards models
- Linking expression to survival
- Pathway enrichment in cancer
- Selecting candidate biomarkers
- Avoiding overfitting and false positives
- Reporting biomarker evidence
- Combining expression, mutation and clinical data
- Subtype analysis
- Visual summaries for papers
- Limitations of public data
- Independent analysis of one cancer type
- Writing the results
- Figure set for a report
- Presentation and feedback

♙

Your Instructor

Bio Help Learning Educator

Bioinformatics Educator & Mentor

Learn from experienced educators and practitioners through practical, career-focused bioinformatics training.

Frequently Asked Questions

6 answers about this course

Do I need my own cancer data?

No. The whole course uses public TCGA and GEO datasets.

Is this course clinical training?

No. It is research training in analysing public cancer genomics data, not medical or diagnostic training.

What should I know before joining?

RNA-seq or WES analysis basics and some R. Our RNA-Seq course covers what you need.

Will I get a certificate?

Yes, after completing all modules, the quizzes and the final project.

How do I get fee and batch details?

Pre-register on this page or contact us on WhatsApp, and our team will share the details.

How long will I have access to the course?

You get full access to all course materials for 3 months from the date of enrollment.

Still have a question?Our team usually replies within one working day.

Ask on WhatsApp →

WHAT OUR LEARNERS SAY

Real Stories. Real Growth.

Hear from learners building practical skills with Bio Help Learning.

★★★★☆

I really enjoyed the course and found it very useful: it gave a clear and practical overview of the whole WGS workflow, from raw reads to a VCF, and the hands-on sessions helped a lot.

Marc Peralta SerranoUniversity of BarcelonaWhole Genome Sequencing (WGS) Data Analysis Training

★★★★★

The workshop provided me an understanding of the principles and techniques involved in bioinformatics, molecular docking, protein-ligand interactions, homology modeling, and drug design.

Ridam BhowmickMaulana Abul Kalam Azad University of Technology, West Bengal.Molecular Docking and Drug Discovery

★★★★★

As i am from biotechnology background this workshop, actually very helpfull for me

Anushka ChavanDeogiri college AurangabadBioinformatics Training

★★★★★

Learn about different molecular docking tools.

Shovan NaskarIndian Institute of Technology (Banaras Hindu University), VaranasiBioinformatics Workshop

★★★★★

This workshop helped me to learn working with various softwares and also to develop an interest over drug designing

Subhodeep SahaUniversity of CalcuttaBioinformatics Training

★★★★★

From this workshop I learned many new things such as docking, about new websites,how to use Swiss software,basic bioinformatics etc, it's very helpful for me.

Sayan DuttaUniversity of CalcuttaBioinformatics Training

★★★★☆

The workshop was informative and provided valuable insights into bioinformatics tools and techniques.

Santhosh M EReva University BangaloreBioinformatics Tools and Techniques

★★★★★

The Drug Discovery Workshop was highly informative and helped me gain valuable knowledge about the drug discovery process, including molecular docking, drug–target interactions, and computational tools used in drug design.

ANUSHA P VCSIR-CCMB, Hyderabad IndiaDrug Discovery Workshop

View More Reviews →

OUR GLOBAL LEARNERS