Personalized Medicine Week 8 Lecture Notes

BIG DATA: PART 1


1. The Cancer Genome Atlas (TCGA)
 A large-scale collaboration initiated and supported by the National Cancer Institute (NCI) and the
National Human Genome Research Institute (NHGRI).
 Goal is to accelerate the understanding of the molecular basis of cancer initiation and progression
through the application of genome analysis technologies, including large-scale genome
sequencing.


TCGA Data
o Experimental Strategies:
- Sequencing
- Genotyping array
- Transcriptomics
- Methylomics
- miRNA
- Proteomics
o Data Types:
- Clinical data
- RNA sequencing
- DNA sequencing
- microRNA expression
- Array based expression
- Copy number: Arrays
- DNA Methylation
- Functional Protein Assays


TCGA Cancers- Cancers Selected for Study
 Poor prognosis
 Impact to public health
 Rare cancers
 Availability of samples meeting standards for consent
 Availability of samples meeting standards for quality and quantity


TCGA Outcomes
 Helped establish the importance of cancer genomics.
 Increase the understanding of cancer from molecular characterisations.
 Establish a rich resource of data available to the research community.
 Enhance the field of computational biology and bioinformatics.
 Advance health and science technologies.
 Guide therapeutic management of disease.