TF Footprints Enrichment in SINE/Alu Regions

We evaluated GM12878 TF footprints for enrichment in cis & trans regions that overlapped SINE/Alu transposable elements compared to 10x expected regions. Enrichment scores were computed using Fisher’s Exact Test with a BH adjusted p-value < 0.05.

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Hansen T., Fong S., Capra J.A, & Hodges E. (2023). Human gene regulatory evolution is driven by the divergence of regulatory element function in both cis and trans. bioRxiv.

Publication Preprint 2023

Alu elements Sine Transposable elements

Corresponding Organization : University of California, San Francisco

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Variable analysis

independent variables

Cis regions that overlapped SINE/Alu transposable elements
Trans regions that overlapped SINE/Alu transposable elements

dependent variables

Enrichment scores computed using Fisher's Exact Test with a BH adjusted p-value < 0.05

control variables

10x expected regions

controls

Positive control: Not specified
Negative control: Not specified

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