Introduction to Motif Discovery and Transcription Factor Binding Site Analysis

Introduction to Motif Discovery and Transcription Factor Binding Site Analysis

bioinformagician via YouTube Direct link

Intro

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1 of 21

Intro

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Introduction to Motif Discovery and Transcription Factor Binding Site Analysis

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  1. 1 Intro
  2. 2 What are motifs?
  3. 3 What are Transcription Factors?
  4. 4 Structure of a gene and regulatory regions
  5. 5 Why is there a need for gene regulation?
  6. 6 Different ways to represent Motifs or Transcription Factor Binding Sites
  7. 7 When to perform a Transcription Factor Binding Site Analysis?
  8. 8 Tools available to perform motif analysis
  9. 9 Motif databases
  10. 10 Case study for demonstration using Homer
  11. 11 Fetch data from NCBI GEO
  12. 12 About Homer and notes on installation
  13. 13 Following Homer instructions to find motifs in genomic regions
  14. 14 Manipulate peak file to get it into the acceptable format
  15. 15 Run Homer script to find motifs
  16. 16 Looking at resulting files
  17. 17 Understanding Homer’s de novo motif finding results
  18. 18 Understanding Homer’s known motif canonical finding results
  19. 19 Find which peaks do a specific motif bind to?
  20. 20 Method 1 to find motif instances
  21. 21 Method 2 to find motif instances

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