Table S2

Published: 5 April 2024| Version 1 | DOI: 10.17632/3nj3g97ncy.1
Contributors:
Claudio Claudio Brancolini,

Description

Supplementary Table S2. Results of SQuIRE differential expression analysis on TEs. Quantification of the locus specific expression of TEs in SK-UT-1 cells treated for 6 or 24 hours with different HDAC inhibitors (NKL54, TMP195 and SAHA).

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Steps to reproduce

Locus-specific TEs expression was quantified using SQuIRE with default parameters. Raw counts were normalized using the DESeq2 default median of ratios approach (using the counts function with the normalized = TRUE parameter) to account for both TEs dispersion and different sequencing depth across samples. For further information see the Materials and Methods of the related manuscript

Institutions

  • Universita degli Studi di Udine

Categories

Medicine, Pharmacogenomics, Epigenetics

Funders

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