• The Basics of Microarrays
• 42 min
  1. How to design a successful microarray experiment

  • Dr. Rainer Breitling
• Microarrays in the Understanding of the Biology of the Cell and Whole Organism
• 51 min
  2. Genome-wide mapping of estrogen: receptor binding sites and activity

  • Prof. Jason Carroll
• Microarrays in the Diagnosis, Prognosis and Treatment of Disease
• 35 min
  3. Single nucleotide polymorphism microarrays in the analysis of cancer

  • Dr. Rameen Beroukhim
• Archived Lectures *These may not cover the latest advances in the field
• 23 min
  4. The use of statistics in microarray studies

  • Dr. Ernst Wit
• 42 min
  5. Simultaneous microarray measurement of nuclear and whole cell changes in gene expression reveals overlapping but distinct patterns of transcriptional regulation

  • Dr. Chris Cheadle
• 38 min
  6. Global analysis of gene translation

  • Prof. Philip Tofilon
• 36 min
  7. Microarrays in the study of the basic mechanisms of evolution

  • Dr. Greg Gibson
• 41 min
  8. The use of microarrays to understand the biology and toxicology of low dose arsenic

  • Prof. Joshua Hamilton
• 46 min
  9. The bioinformatics of microarrays

  • Dr. Maureen Sartor
• 44 min
  10. Genome-wide profiling of microRNAs: from scientist benchside to patient bedside

  • Prof. George Calin
• 42 min
  11. Microarrays: their design and use

  • Prof. Craig R. Tomlinson
• 67 min
  12. Cancer systems biology: dissection and analysis of context-specific molecular interaction networks

  • Prof. Andrea Califano
• 35 min
  13. Utilizing microarrays to study posttranscriptional regulatory mechanisms of plants

  • Dr. Brian Gregory

Printable Handouts

PDF

Navigable Slide Index

1. Introduction
2. Should I do a microarray experiment at all?
3. What is a successful microarray experiment?
4. Some common issues in microarray experiments
5. Why are microarrays special?
6. How many replicates? (1)
7. How many replicates? (2)
8. How many replicates? (3)
9. How many replicates are actually used?
10. Statistical tools for small datasets
11. The quality of the sample
12. The magnitude of the effect (1)
13. The magnitude of the effect (2)
14. What is a good replicate?
15. What is a bad replicate?
16. Should samples be pooled?
17. Beware of batch effects
18. Which arrays are the best?
19. Do I have to confirm my results?
20. Acknowledgements
21. Further reading

Topics Covered

• Why do microarray experiments?
• Criteria of success
• Number of arrays and replicates
• Statistics for small datasets
• Sample quality and effect sizes
• Which controls to use
• Pooling and batch effects
• Array platform differences

Links

Series:

• Microarrays

Categories:

• Methods

Talk Citation

Publication History

• Published on March 30, 2009
• Reviewed on April 12, 2022

Financial Disclosures

• Dr. Rainer Breitling has not informed HSTalks of any commercial/financial relationship that it is appropriate to disclose.