Project description:This SuperSeries is composed of the following subset Series: GSE21992: Analysis of HeLa cells after transfection with miR-1 or miR-155, by ribosome profiling and mRNA-Seq GSE22001: Analysis of mir-223 knockout cultured neutrophils versus wild-type cultured neutrophils, by ribosome profiling and mRNA-Seq GSE22002: Analysis of HeLa cells after transfection with miR-1 or miR-155, by microarray profiling GSE22003: Analysis of mir-223 knockout cultured neutrophils versus wild-type cultured neutrophils, by microarray profiling Refer to individual Series
Project description:We screened for target genes of hsa-mir-199a-1 and hsa-mir-4423 by transcriptome profiling. The miRNAs were overexpressed in HeLa cells by transient transfection of precursor miRNA expression plasmids. High-density Clariom D arrays for human were used for the gene expression analysis. This GEO entry provides the microarray data preprocessed according to the gene level workflow.
Project description:MicroRNAs (miRNAs) are endogenous ~22-nucleotide RNAs that mediate important gene-regulatory events by pairing to the mRNAs of protein-coding genes to direct their repression. Repression of these regulatory targets leads to decreased translational efficiency and/or decreased mRNA levels, but the relative contributions of these two outcomes have been largely unknown, particularly for endogenous targets expressed at low-to-moderate levels. Here, we use ribosome profiling to measure the overall effects on protein production and compare these to simultaneously measured effects on mRNA levels. For both ectopic and endogenous miRNA regulatory interactions, lowered mRNA levels account for most (≥84%) of the decreased protein production. These results show that changes in mRNA levels closely reflect the impact of miRNAs on gene expression and indicate that destabilization of target mRNAs is the predominant reason for reduced protein output. Examine ribosome footprints and mRNA abundance of HeLa cells transfected with miR-1 or miR-155, versus mock-transfected cells, at two different time points post-transfection. Supplementary processed data files linked below. mir155_summaryTable.txt: log2 fold changes (miR-155-transfected versus mock-transfected HeLa cells, 32hr). mir1_summaryTable.txt: log2 fold changes (miR-1-transfected versus mock-transfected HeLa cells, 32hr).
Project description:RNA-seqs followed by miRNA transfections (miR-124 and miR-155) into four different cell lines( HeLa, HEK293, Huh7, and IMR90). There are two biological replicates of RNA-seqs per each miRNA transfection per each sample and there are corresponding mock transfections.
Project description:We screened for target genes of hsa-miR-548ac by transcriptome profiling. The miRNA was overexpressed in HeLa cells by transient transfection of a precursor miRNA expression plasmid. High-density Affymetrix Human Transcriptome Arrays (HTA) 2.0 were used for the gene expression analysis. This GEO entry provides the microarray data preprocessed according to the gene level workflow.
