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MYC regulates the non-coding transcriptome

Academic Article
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Overview

authors

  • Hart, J. R.
  • Roberts, T. C.
  • Weinberg, Marc
  • Morris, Kevin
  • Vogt, Peter K.

publication date

  • December 2014

journal

  • Oncotarget  Journal

abstract

  • Using RNA-seq (RNA sequencing) of ribosome-depleted RNA, we have identified 1,273 lncRNAs (long non-coding RNAs) in P493-6 human B-cells. Of these, 534 are either up- or downregulated in response to MYC overexpression. An increase in MYC occupancy near their TSS (transcription start sites) was observed for MYC-responsive lncRNAs suggesting these are direct MYC targets. MYC binds to the same TSS across several cell lines, but the number of TSS bound depends on cellular MYC levels and increases with higher MYC concentrations. Despite this concordance in promoter binding, a majority of expressed lncRNAs are specific for one cell line, suggesting a determinant role of additional, possibly differentiation-specific factors in the activity of MYC-bound lncRNA promoters. A significant fraction of the lncRNA transcripts lack polyadenylation. The RNA-seq data were confirmed on eight selected lncRNAs by NRO (nuclear run-on) and RT-qPCR (quantitative reverse transcription PCR).

subject areas

  • B-Lymphocytes
  • Cell Line
  • Genes, myc
  • Humans
  • RNA, Long Noncoding
  • Transcriptome
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Research

keywords

  • RNA-seq
  • Transcriptional regulation
  • bidirectional promoter
  • nuclear run-on
  • promoter occupancy
  • quantitative PCR
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Identity

PubMed Central ID

  • PMC4350361

International Standard Serial Number (ISSN)

  • 1949-2553

Digital Object Identifier (DOI)

  • 10.18632/oncotarget.3033

PubMed ID

  • 25587025
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Additional Document Info

start page

  • 12543

end page

  • 12554

volume

  • 5

issue

  • 24

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