CancerBioinformatics101

This repository centered on the foundational knowledge of cancer bioinformatics.

Overview

This repository is a collection of my learning materials on the core concepts of cancer bioinformatics. It's designed to help me organize study notes, key resources, and foundational knowledge in this field.

Important Note: This is a public repository. Content focuses on theoretical concepts and learning materials.

OUTLINE

This repository is organized around the following key areas:

• Cancer Genomics: Fundamental principles of cancer genetics and genomics.
• Transcriptomics: Theory and methods for analyzing gene expression in cancer.
• Genomic Variation: Concepts and techniques for studying variants in cancer genomes.
• Databases & Resources: Key cancer-specific databases and bioinformatics resources.
• Literature: Key papers, reviews, and publications relevant to cancer bioinformatics.

Content Guidelines

To ensure clarity and focus, the following guidelines are used:

• Theory over Practice: Emphasize the underlying biological and bioinformatics principles.
• Fundamental Concepts: Focus on introductory to intermediate-level knowledge.
• Resource Compilation: Include links to papers, reviews, tutorials, and databases that explain core concepts.
• Limit Code/Pipelines: Avoid detailed code, scripts, or specific pipeline instructions (those belong in CancerGenomicsPipelines or Genomics-Wiki).

Example Entries

• genomics/cancer-genetics.md:
  • Overview of the hallmarks of cancer.
  • Explanation of oncogenes and tumor suppressor genes.
  • Notes on the role of epigenetics in cancer.
• transcriptomics/rna-seq-theory.md:
  • Principles of RNA-seq technology.
  • Explanation of transcript quantification methods.
  • Discussion of normalization strategies for RNA-seq data.
• genomic-variation/variant-types.md:
  • Descriptions of different types of mutations in cancer (SNVs, indels, CNVs, structural variants).
  • Explanation of variant annotation.
• databases/tcga.md:
  • Description of The Cancer Genome Atlas (TCGA) project.
  • Types of data available in TCGA.
  • How to access and use TCGA data.

📚 Resources

• The Cancer Genome Atlas (TCGA)
• cBioPortal for Cancer Genomics
• COSMIC Database

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Created as part of my personal learning journey in cancer bioinformatics. 🚀