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TranscriptomicsSplicing function of mitotic regulators links R-loop mediated DNA damage to tumor cell killing
We discovered that two mitotic regulators, BuGZ and Bub3, involved in splicing regulation during interphase 8 samples from primary Human foreskin fibroblast cells (HFFs) , 12 samples from TOV21G cells. Control siRNA. BuGZ siRNA or Bub3 siRNA were transfected for 48 h before sample collection. Cells ...
ORGANISM(S): Homo sapiens 
2015-04-11 | E-GEOD-67770 | biostudies-arrayexpress
TranscriptomicsAnalysis of Zika Virus gene expression by Ribosome profiling and RNA sequencing
Ribosome profiling (Ribo-Seq) (maps positions of translating ribosomes on the transcriptome) and RNA-Seq (quantifies the transcriptome) analysis of African green monkey (Vero E6) cells and Aedes albopictus (C6/36) cells infected with Zika Virus (ZIKV) strain PE243. Cells were harvested at 24 h post ...
ORGANISM(S): Chlorocebus sabaeus 
2018-06-30 | E-MTAB-5418 | biostudies-arrayexpress
TranscriptomicsRibosome profiling and RNA sequencing of Infectious Bronchitis Virus
Ribosome profiling (Ribo-Seq) (maps positions of translating ribosomes on the transcriptome) and RNA-Seq (quantifies the transcriptome) analysis of chicken (Gallus gallus) cells infected with Infectious Bronchitis Virus (IBV) strains Beaudette and M41.
ORGANISM(S): Gallus gallus 
2019-06-18 | E-MTAB-7849 | biostudies-arrayexpress
TranscriptomicsRibosome profiling and RNA sequencing of ED fibroblast cells in response to infection by equine torovirus, Berne strain.
Ribosome profiling (Ribo-Seq) (maps positions of translating ribosomes on the transcriptome) and RNA-Seq (quantifies the transcriptome) analysis of equine torovirus.
ORGANISM(S): Equus caballus 
2018-05-15 | E-MTAB-6656 | biostudies-arrayexpress
TranscriptomicsExpanded identification and characterization of mammalian circular RNAs
The recent reports of two circular RNAs (circRNAs) with strong potential to act as microRNA (miRNA) sponges suggest that circRNAs might play important roles in regulating gene expression. However, the global properties of circRNAs are not well understood. We developed a computational pipeline to ide...
ORGANISM(S): Homo sapiens 
2014-07-08 | E-GEOD-51584 | biostudies-arrayexpress
TranscriptomicsIntegrative AUF1 PAR-CLIP analysis uncovers AUF1 roles in translation and genome integrity (Ribosome)
We report that AUF1 modulates global mRNA stability and translation, in turn promoting the maintenance of DNA integrity. Please see individual series. In short, For AUF1 PAR-CLIP, the four isoforms of AUF1 (p37, p40, p42, and p45) tagged with a Flag epitope were expressed in HEK293 cells. For total ...
ORGANISM(S): Homo sapiens 
2014-11-04 | E-GEOD-52976 | biostudies-arrayexpress
TranscriptomicsAnalysis of HeLa cells after transfection with miR-1 or miR-155, by ribosome profiling and mRNA-Seq
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 rel...
ORGANISM(S): Homo sapiens 
2010-08-03 | E-GEOD-21992 | biostudies-arrayexpress
TranscriptomicsAnalysis of mir-223 knockout cultured neutrophils versus wild-type cultured neutrophils, by ribosome profiling and mRNA-Seq
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 rel...
ORGANISM(S): Mus musculus 
2010-08-03 | E-GEOD-22001 | biostudies-arrayexpress
TranscriptomicsAnalysis of HeLa cells after transfection with miR-1 or miR-155, by microarray profiling
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 rel...
ORGANISM(S): Homo sapiens 
2010-08-03 | E-GEOD-22002 | biostudies-arrayexpress
TranscriptomicsAnalysis of cardiovirus and infected host-cell gene expression through RNA sequencing and ribosome profiling
Ribosome profiling (RiboSeq) (maps positions of translating ribosomes on the transcriptome) and RNASeq (quantifies the transcriptome) analysis of murine L929 cells infected with encephalomyocarditis virus vMC0. Samples comprise 2, 4, 6 and 8 h post infection RiboSeq timecourses for WT virus and a sh...
ORGANISM(S): Mus musculus 
2017-06-02 | E-MTAB-5206 | biostudies-arrayexpress
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