Dataset Information

Effects of Long-term Culture on the Biological Characteristics and ceRNA Network-associated RNA Profiles of Human Bone Marrow-derived Mesenchymal Stem Cells

ABSTRACT: Effects of Long-term Culture on the Biological Characteristics and ceRNA Network-associated RNA Profiles of Human Bone Marrow-derived Mesenchymal Stem Cells

PROVIDER: PRJNA739464 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Dataset's files

Source:

			Action	DRS
	SRR14867834_1.fastq.gz	Fastqsanger.gz
	SRR14867834_2.fastq.gz	Fastqsanger.gz
	SRR14867835_1.fastq.gz	Fastqsanger.gz
	SRR14867835_2.fastq.gz	Fastqsanger.gz
	SRR14867836_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 27

Similar Datasets

Project description:Expression changes of competitive endogenous RNAs (ceRNAs) have been proposed to influence microRNA (miRNA) activity and thereby regulate other transcripts that contain miRNA binding sites. Here, we find that although miRNA levels define the extent of repression, they do not affect the magnitude of the ceRNA expression change required to observe derepression. Canonical 6-nt sites, which typically mediate modest repression, can nonetheless compete for miRNA binding, with potency ~20% of that observed for canonical 8-nt sites. Sites with extensive additional complementarity can be even more potent, but this occurs predominantly through miRNA degradation rather than competition. Cooperative binding of closely spaced sites for different miRNAs can also increase potency. These results provide quantitative insights into the stoichiometric relationship between miRNA and target abundance, target-site spacing and affinity requirements for ceRNA-mediated gene regulation and specify the unusual circumstances in which ceRNA-mediated gene regulation might be observed. Sixty-four mRNA profiles were generated of 1) primary hepatocytes of mice expressing variable levels of a recombinant Adenovirus expressing the transcript of AldolaseA (Ad-AldoA), containing sites matching miR-122, let-7, miR-192, miR-194 or a mutated site (no site) or 2) embryonic stem (ES) cells that were transfected with a Tet-inducible dual-color reporter construct expressing enhanced yellow fluorescent protein (eYFP) and mCherry that contains zero (0s) or three (3s) 8 nt miRNA seed matches for miR-293 or miR-92 in the 3â?² UTR. ES cells were sorted with a FACSAria IIIu flow cytometer into three bins based on their eYFP fluorescence intensity. All samples were sequenced in duplicates by an Illumina HiSeq 2500. Library preparation and sequencing were performed by Fasteris SA (Switzerland) or by the Functional Genomics Centre ZÃ¼rich (FGCZ). Three small RNA profiles or either primary hepatocytes or embryonic stem cells were also generated by Solexa sequencing.

Dataset Information

Effects of Long-term Culture on the Biological Characteristics and ceRNA Network-associated RNA Profiles of Human Bone Marrow-derived Mesenchymal Stem Cells

Dataset's files

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets