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Homo sapiens

ABSTRACT: The methylome of Alu repeats in human stem cells

PROVIDER: PRJNA376392 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR5278230.fastq.gz	Fastqsanger.gz
	SRR5278240.fastq.gz	Fastqsanger.gz
	SRR5278231.fastq.gz	Fastqsanger.gz
	SRR5278241.fastq.gz	Fastqsanger.gz
	SRR5278232.fastq.gz	Fastqsanger.gz

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Homo sapiens immortalized MSCs: 3A6

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Project description:DNA methylation variation of human-specific Alu repeats

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Homo sapiens MSCs: Normoxia vs. Hypoxia

Project description:Transcriptional profiling of human mesenchymal stem cells comparing normoxic MSCs cells with hypoxic MSCs cells. Hypoxia may inhibit senescence of MSCs during expansion. Goal was to determine the effects of hypoxia on global MSCs gene expression.

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Homo sapiens immortalized MSCs: KP vs. 3A6

Project description:Gene methylation profiling of immortalized human mesenchymal stem cells comparing HPV E6/E7-transfected MSCs cells with human telomerase reverse transcriptase (hTERT)- and HPV E6/E7-transfected MSCs. hTERT may increase gene methylation in MSCs. Goal was to determine the effects of different transfected genes on global gene methylation in MSCs.

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Homo sapiens immortalized MSCs: 3A6

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Homo sapiens MSCs: Normoxia vs. Hypoxia

2011-02-19 | E-GEOD-20463 | biostudies-arrayexpress

Retinoic Acid-Induced DR2 Alu Transcripts in Stem Cells Generate Functional Small RNAs that Mediate Target mRNA Degradation

Project description:While liganded nuclear receptors are well established to regulate Pol II protein-coding transcription units, their role in regulation of DNA repeats remains largely unknown. Here, we report that ~2-3% of the ~1-200,000 human DR2 Alu repeats, particularly those in proximity to retinoic acid-activated Pol II transcription units, are bound and activated by retinoic acid receptor in human embryonic stem cells, triggering their Pol III-dependent transcription. The non-coding DR2 Alu transcripts are processed in a Dicer-dependent fashion into a series of small RNA products with sizes ranging ~28-65nt and exhibit substantial co-localization with P bodies. These small RNAs cause degradation of a subset of mRNAs critical for the "stem cell" state, which harbor complimentary sequences in their 3' untranslated regions. This regulation requires Ago3- dependent stabilization of full-length and processed DR2 Alu transcripts, and recruitment of Ago3-associated decapping complexes to the target mRNAs. Thus, the RAR/Pol III-dependent DR2 Alu transcriptional program in stem cells serves as a functional complement to the RAR/Pol II-dependent counterpart. ChIP-seq of H3K36me3 samples before and after RA (retinoic acid) treatments.

2012-09-01 | E-GEOD-30876 | biostudies-arrayexpress

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