Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Rnase1 responsive miRNA

ABSTRACT: To determine the importance of RNase1 on cellular miRNA function, we used a lentivirus system to stably express RNase1 in dicer wt and dicer ex5 RKO cells in serum free culture. RNase1 was found to govern miRNA that reside outside the pureview of Dicer. Assignment of RNase1 as miRNA-generating enzyme suggests that, like Dicer, RNaseA enzymes mediate essential physiological functions through regulatory RNA.

ORGANISM(S): Merkel cell polyomavirus Human gammaherpesvirus 8 JC polyomavirus Saimiriine gammaherpesvirus 2 Betapolyomavirus macacae Human immunodeficiency virus 1 Homo sapiens Human betaherpesvirus 5 Human alphaherpesvirus 2 Betapolyomavirus hominis Human alphaherpesvirus 1 Macacine alphaherpesvirus 1 Human betaherpesvirus 6B human gammaherpesvirus 4

PROVIDER: GSE72796 | GEO | 2015/09/15

SECONDARY ACCESSION(S): PRJNA295979

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Rnase1 responsive miRNA

Project description:To determine the importance of RNase1 on cellular miRNA function, we used a lentivirus system to stably express RNase1 in dicer wt and dicer ex5 RKO cells in serum free culture. RNase1 was found to govern miRNA that reside outside the pureview of Dicer. Assignment of RNase1 as miRNA-generating enzyme suggests that, like Dicer, RNaseA enzymes mediate essential physiological functions through regulatory RNA. Two-condition experiment, wild-type RNase1 vs mutant (6x) RNase1,in two cell lines RKO dicer wild-type and RKO dicer mutant (ex5). Biological replicates: 2 for each condition and each cell line . One replicate per array.

2015-09-15 | E-GEOD-72796 | biostudies-arrayexpress

Influence of RNA modification on microRNAs (ver 2)

Project description:Gene expression profiles of methylated or nonmethylated miRNA oligonucleotides transfected DICER exon 5-disrupted RKO cells.

2017-07-01 | GSE83740 | GEO

Influence of RNA modification on microRNAs

Project description:Gene expression profiles of methylated or nonmethylated miRNA oligonucleotides transfected DICER exon 5-disrupted RKO cells.

2017-07-01 | GSE75927 | GEO

A variety of Dicer substrates in human and C. elegans (HEK PAR-CLIP)

Project description:The endoribonuclease Dicer is known for its central role in the biogenesis of eukaryotic small RNAs/microRNAs. Despite its importance, Dicer target transcripts have not been directly mapped. Here, we apply biochemical methods to human cells and C. elegans and identify thousands of Dicer binding sites. We find known and hundreds of novel miRNAs with high sensitivity and specificity. We also report structural RNAs, promoter RNAs, and mitochondrial transcripts as Dicer targets. Interestingly, most Dicer binding sites reside on mRNAs/lncRNAs and are not significantly processed into small RNAs. These passive sites typically harbor small, Dicer-bound hairpins within intact transcripts and generally stabilize target expression. We show that passive sites can sequester Dicer and reduce microRNA expression. mRNAs with passive sites were in human and worm significantly associated with processing-body/granule function. Together, we provide the first transcriptome-wide map of Dicer targets and suggest conserved binding modes and functions outside the miRNA pathway. PAR-CLIP basically as described previously (Hafner et al. 2010).

2014-11-20 | E-GEOD-63437 | biostudies-arrayexpress

A variety of Dicer substrates in human and C. elegans (HEK PAR-CLIP)

2014-11-20 | GSE63437 | GEO

A variety of Dicer substrates in human and C. elegans (CEL RNA-seq)

2014-11-20 | GSE63435 | GEO

A variety of Dicer substrates in human and C. elegans (HEK RNA-seq)

2014-11-20 | GSE63475 | GEO

A variety of Dicer substrates in human and C. elegans (HEK small RNA)

2014-11-20 | GSE63458 | GEO

A variety of Dicer substrates in human and C. elegans (CEL RNA-seq)

Project description:The endoribonuclease Dicer is known for its central role in the biogenesis of eukaryotic small RNAs/microRNAs. Despite its importance, Dicer target transcripts have not been directly mapped. Here, we apply biochemical methods to human cells and C. elegans and identify thousands of Dicer binding sites. We find known and hundreds of novel miRNAs with high sensitivity and specificity. We also report structural RNAs, promoter RNAs, and mitochondrial transcripts as Dicer targets. Interestingly, most Dicer binding sites reside on mRNAs/lncRNAs and are not significantly processed into small RNAs. These passive sites typically harbor small, Dicer-bound hairpins within intact transcripts and generally stabilize target expression. We show that passive sites can sequester Dicer and reduce microRNA expression. mRNAs with passive sites were in human and worm significantly associated with processing-body/granule function. Together, we provide the first transcriptome-wide map of Dicer targets and suggest conserved binding modes and functions outside the miRNA pathway. Regulatory impact of Dicer binding was assessed by knock down experiments in human HEK293 cells and Caenorhabditis elegans. Drosha knockdown and mock transfections were used as controls. In total 6 samples (3 human, 3 nematode)

2014-11-20 | E-GEOD-63435 | biostudies-arrayexpress

A variety of Dicer substrates in human and C. elegans (HEK RNA-seq)

Project description:The endoribonuclease Dicer is known for its central role in the biogenesis of eukaryotic small RNAs/microRNAs. Despite its importance, Dicer target transcripts have not been directly mapped. Here, we apply biochemical methods to human cells and C. elegans and identify thousands of Dicer binding sites. We find known and hundreds of novel miRNAs with high sensitivity and specificity. We also report structural RNAs, promoter RNAs, and mitochondrial transcripts as Dicer targets. Interestingly, most Dicer binding sites reside on mRNAs/lncRNAs and are not significantly processed into small RNAs. These passive sites typically harbor small, Dicer-bound hairpins within intact transcripts and generally stabilize target expression. We show that passive sites can sequester Dicer and reduce microRNA expression. mRNAs with passive sites were in human and worm significantly associated with processing-body/granule function. Together, we provide the first transcriptome-wide map of Dicer targets and suggest conserved binding modes and functions outside the miRNA pathway. Regulatory impact of Dicer binding was assessed by knock down experiments in human HEK293 cells. Drosha knockdown and mock transfections were used as controls. Knockdown was performed with two independent siRNAs each. In total 5 samples.

2014-11-20 | E-GEOD-63475 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data