Genomics

Dataset Information

158

5-hydroxymethylcytosine poises expression of genes involved in hematopoietic differentiation


ABSTRACT: Epigenetic processes regulate hematopoietic stem cell homeostasis. The recent discovery of 5-hydroxymethylcytosine (5hmC) provides new insights into the epigenetic regulation of gene expression during development. We used reduced representation of 5-hydroxymethylcytosine profiling (RRHP) to characterize the genome-wide distribution of 5hmC in human CD34+ hematopoietic stem/progenitor cells, lymphocytes, monocytes and granulocytes. We show that 5hmC levels decrease during cell differentiation and that 5hmC is associated with H3K4me1 and H3K27ac histone modifications, indicative of active enhancers. In CD34+ cells, the presence of 5hmC at presumed active enhancers correlates with increased binding of RUNX1 and FLI1, two transcription factors essential for hematopoiesis. Moreover, in progenitor cells, 5hmC poises the expression of transcription factors regulating hematopoietic lineage commitment, such as RUNX1, FOXO1 and C/EBP-alpha. Our study provides the first comprehensive genome-wide overview of 5hmC distribution in human hematopoietic cells and of its potential role in transcriptional network regulation during hematopoiesis. Overall design: RRHP: profiling of 5-hydroxymethylcytosine and RNA-seq in human blood cells

INSTRUMENT(S): Illumina HiSeq 2000 (Homo sapiens)

SUBMITTER: Xavier Tekpli  

PROVIDER: GSE69905 | GEO | 2016-06-02

SECONDARY ACCESSION(S): PRJNA287113

REPOSITORIES: GEO

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Publications

Changes of 5-hydroxymethylcytosine distribution during myeloid and lymphoid differentiation of CD34+ cells.

Tekpli Xavier X   Urbanucci Alfonso A   Hashim Adnan A   Vågbø Cathrine B CB   Lyle Robert R   Kringen Marianne K MK   Staff Anne Cathrine AC   Dybedal Ingunn I   Mills Ian G IG   Klungland Arne A   Staerk Judith J  

Epigenetics & chromatin 20160531


Hematopoietic stem cell renewal and differentiation are regulated through epigenetic processes. The conversion of 5-methylcytosine into 5-hydroxymethylcytosine (5hmC) by ten-eleven-translocation enzymes provides new insights into the epigenetic regulation of gene expression during development. Here, we studied the potential gene regulatory role of 5hmC during human hematopoiesis.We used reduced representation of 5-hydroxymethylcytosine profiling (RRHP) to characterize 5hmC distribution in CD34+  ...[more]

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