Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

A tRNA-derived microRNA modulates the DNA damage response and is downregulated in B cell lymphoma

ABSTRACT: Sequencing studies from several model systems have suggested that diverse and abundant small RNAs may derive from tRNA, but the function of these molecules remains undefined. Here we demonstrate that one such tRNA fragment, cloned from human B cells and designated CU1276, in fact possesses the functional characteristics of a microRNA, including a DICER1-dependent biogenesis, physical association with Argonaute proteins, and the ability to repress mRNA transcripts in a sequence-specific manner. The gene expression profiling undertaken for this study was done in order to assay mRNA-level changes in 293T cells upon modulation of CU1276 levels, and thereby to identify direct targets of this sequence. Ultimately, we fully validated the endogenous gene RPA1 as a CU1276 target. This study includes four biological replicates each of the following groups: 293T transiently transfected with empty vector, 293T transiently transfected with chr1.tRNA68-Gly(GCC) expressing vector, and 293T transiently transfected with CU1276 hairpin expressing vector.

ORGANISM(S): Homo sapiens

SUBMITTER: Roy Maute

PROVIDER: E-GEOD-42989 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Real-time quantitative PCR analysis of Wild-type p53 (Wtp53) and Mutant p53 (Mutp53) transiently overexpressed in HEK-293T cells

Project description:To identify a novel lncRNA regulated by mutp53. Wtp53 and 5 different hotspots mutation of p53 were transiently transfected into HEK-293T cells and compared with plasmid vector (pcDNA6A-Flag).

2023-10-07 | GSE159185 | GEO

Human Embryonic Kidney(293T) Cells: Control vs. Transfected

Project description:Transcriptional profiling of Human Embryonic Kidney(293T) Cells comparing control untreated 293T cells with 293T cells transfected with A) pcDNA 3.0(-) vector[Invitrogen] (Mock) and B) Expression vector pcDNA 3.0(-) containing cloned Influenza virus H5N1and H11N1-NS1 (Non-Structural1) gene.

2014-07-14 | GSE39155 | GEO

Mechanism of virus attenuation by codon pair deoptimization

Project description:Determination of translation efficiency of recoded neuramindase mRNA transcripts in transiently transfected HEK 293T cells.

2020-01-01 | GSE134752 | GEO

Over-expression of truncated FMRP with 295 amino acid residues: HEK293T cells

2015-05-08 | GSE68668 | GEO

PIM1 and NFATC1 targets in PC-3 prostate cancer cells

Project description:PC-3 cells stably transfected with PIM1 overexpressing vector and transiently transfected with wt or multi-mutant NFATC1 overexpressing vector

2018-09-19 | GSE120133 | GEO

Comparison between MCF7-IKKe overexpressing cells and MCF7 control cells

Project description:Analysis of differentially expressed genes in MCF7 cancer cells transiently transfected with an expression vector containing the ORF of IKKe and as a control, cells were transfected with a vector containing the ORF of Lacz.

2021-04-13 | GSE113538 | GEO

Over-expression of truncated FMRP with 295 amino acid residues: HEK293T cells

Project description:We used microarrays to detail the global gene expression in stably transfected HEK 293T cells of the over-expression of truncated FMRP containing 295 amino acid residues, which were compared with control (stably transfected HEK 293T cells of empty lentiviral vector (pLEX-MCS). Stably transfected HEK 293T cells of empty lentiviral vector (pLEX-MCS) and the over-expression of truncated FMRP were for RNA extraction and hybridization on Affymetrix microarrays.

2015-05-08 | E-GEOD-68668 | biostudies-arrayexpress

A tRNA-derived microRNA modulates the DNA damage response and is downregulated in B cell lymphoma

Project description:Sequencing studies from several model systems have suggested that diverse and abundant small RNAs may derive from tRNA, but the function of these molecules remains undefined. Here we demonstrate that one such tRNA fragment, cloned from human B cells and designated CU1276, in fact possesses the functional characteristics of a microRNA, including a DICER1-dependent biogenesis, physical association with Argonaute proteins, and the ability to repress mRNA transcripts in a sequence-specific manner. The gene expression profiling undertaken for this study was done in order to assay mRNA-level changes in 293T cells upon modulation of CU1276 levels, and thereby to identify direct targets of this sequence. Ultimately, we fully validated the endogenous gene RPA1 as a CU1276 target.

2012-12-19 | GSE42989 | GEO

Huntingtin contains an ubiquitin-binding domain and regulates lysosomal targeting of mitochondrial and RNA-binding proteins

Project description:Evaluating the identity of ubiquitinated and ubiquitin-associated proteins tandem co-purifying non-covalently with wild-type (17 glutamine) human Huntingtin fragment, amino acids 1-502 C-terminally tagged with the HA peptide epitope, basally expressed from the CMV promoter within vector pcDNA3.1 transiently transfected into striatal precursor cell line St14A, significantly elevated above cells transfected with empty pcDNA3.1 vector negative control, in cells co-transfected with human FLAG-ubiquitin.

2024-07-31 | PXD053980 | Pride

Immunoprecipitation of PTEN coupled Nano-LC−ESI-MS/MS

Project description:Nuclear localization of PTEN is essential for its tumor suppressive role, and loss of nuclear PTEN is more prominent than cytoplasmic PTEN in many kinds of cancers. However, nuclear PTEN-specific regulatory mechanisms were rarely reported. Based on the finding that nuclear PTEN is more unstable than cytoplasmic PTEN. Thus, 293T cells were transiently transfected with plasmid encoding Flag-tagged PTEN along with empty vector, followed by affinity purification using an anti-Flag antibody, and the bound proteins were analyzed by liquid chromatography with tandem mass spectrometry (LC−MS/MS). Here we identify that F-box only protein 22 (FBXO22) induces ubiquitylation of nuclear but not cytoplasmic PTEN at lysine 221, which is responsible for the degradation of nuclear PTEN.

2020-04-22 | PXD017983 | Pride

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