Analysis of TEAD4 ChIP-Seq data and identification of TEAD4 targets in MDA-MB-231 cells

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Student Project done by:

Kang, Evangeline Tze Zhen (54540570)

The slides can be downloaded here

This tutorial includes TEAD4 ChIP-Seq experiment and analysis, Visualization of ChIP peaks, Motif analysis.

TEAD4 ChIP-Seq experiment and analysis

  • Negative control: IgG (2 replicates)
  • Transcription factor: TEAD4 (2 replicates)
  • Cell line: Breast cancer line (MDA-MB-231
  • GEO Dataset: GSE66081

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Visualization of ChIP peaks

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Motif analysis

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Experiment validation- Enrichment on known binding site

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TEAD4 is enriched in promoter regions

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Potential role of TEAD4 in MAPK signaling pathway

  • MAPK signaling pathway transmit grown promoting signals
  • Abnormalities in MAPK signaling pathway play a critical role in the development and progression of cancer

Potential role of TEAD4 in mediating Ras expression

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References

  1. https://github.com/CityUHK-CompBio/HTSanalyzeR2

  2. https://galaxyproject.org/

  3. http://cistrome.org/ap/

  4. Zanconato, F. et al. Genome-wide association between YAP / TAZ / TEAD and AP-1 at enhancers drives oncogenic growth. 17, (2015).


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