big data

Question 1

what is big data

Answer 1

datasets too large or complex to process using traditional data processing methods

Question 2

characteristics of big data

Answer 2

• large volume, many types with variation
• interactions between variables
• advanced stats to analyse data
• unbiased experiments

Question 3

types of big data

Answer 3

OMICs = genomics/epigenomics etc
Microscopy = cell morphology, migration etc
Human physiology = activity, health etc

Question 4

purpose of big data

Answer 4

Development of science
Physiology
Drug safety
Epidemiology
Disease
Past and future events

Question 5

how could you interpret consequences of gene expression changes

Answer 5

gene ontology and bio pathway algorithms

Question 6

what does single cell RNA sequencing do

Answer 6

collects transcriptome of 100s-10,000s individual cells → sequence genomes
- tells which genes are expressed by particular cells
- cell type-specific gene expression
changes
- cell lineage/differentiation trajectories
- tissue composition

Question 7

what is a UMAP plot

Answer 7

• Each dot is a cell
• Close = similar, far away = more different
• Each colour marks ‘clusters’ of similar cells

Question 8

what is a GWAS

Answer 8

• identifies genes affecting disease risk
• Manhattan Plots maps DNA sequence variants associated with a disease at genome-scale

Question 9

Combining disease risk-associated genetic variant data with gene expression data can:

Answer 9

• Identify the gene(s) whose expression levels are linked to the SNP allele
• Identify the cell type(s) in which the the genetic variant(s) have functional consequences
• Reveal how those variants might regulate gene expression