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Transposable elements have rewired the core regulatory network of human embryonic stem cells
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Transposable elements have rewired the core regulatory network of human embryonic stem cells
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Journal Article
Transposable elements have rewired the core regulatory network of human embryonic stem cells
2010
Overview
Guillaume Bourque and colleagues report genome-wide binding profiles of the OCT4, NANOG and CTCF proteins in human ES cells as determined by ChIP-sequencing. They find that the binding profiles of OCT4 and NANOG are different in human and mouse ES cells, and some of the differences in bound sites are due to transposable elements.
Detection of new genomic control elements is critical in understanding transcriptional regulatory networks in their entirety. We studied the genome-wide binding locations of three key regulatory proteins (POU5F1, also known as OCT4; NANOG; and CTCF) in human and mouse embryonic stem cells. In contrast to CTCF, we found that the binding profiles of OCT4 and NANOG are markedly different, with only ∼5% of the regions being homologously occupied. We show that transposable elements contributed up to 25% of the bound sites in humans and mice and have wired new genes into the core regulatory network of embryonic stem cells. These data indicate that species-specific transposable elements have substantially altered the transcriptional circuitry of pluripotent stem cells.
Publisher
Nature Publishing Group US,Nature Publishing Group
Subject
/ Animal Genetics and Genomics
/ Animals
/ Biological and medical sciences
/ Biomedical and Life Sciences
/ DNA Transposable Elements - genetics
/ Embryonic Stem Cells - metabolism
/ Embryos
/ Fundamental and applied biological sciences. Psychology
/ Genetics of eukaryotes. Biological and molecular evolution
/ Genic rearrangement. Recombination. Transposable element
/ Genome-Wide Association Study
/ Homeodomain Proteins - genetics
/ Homeodomain Proteins - metabolism
/ Humans
/ letter
/ Methods
/ Mice
/ Molecular and cellular biology
/ Octamer Transcription Factor-3 - genetics
/ Octamer Transcription Factor-3 - metabolism
/ Regulatory Sequences, Nucleic Acid - genetics
/ Repressor Proteins - genetics
/ Repressor Proteins - metabolism
/ Studies
