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

Polysomes from DENR knockdown cells

ABSTRACT: The aim was to identify transcripts that are poorly translated upon knockdown of DENR. Lysates from control (GFP) and DENR knockdown S2 cells were run on polysome gradients. RNA from the (80S peak + polysome peaks) was isolated and analyzed by microarrays. In parallel, total RNA from the cells was also profiled as a normalization control and profiled. The 'translation score' of translated mRNA to total RNA was then calculated for control and DENR knockdown cells. Two biological replicates for DENR knockdown and GFP knockdown were performed. For each sample, (80S+polysomes) and total RNA were profiled, leading to 8 samples in total.

ORGANISM(S): Drosophila melanogaster

SUBMITTER: Aurelio Teleman

PROVIDER: E-GEOD-54625 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Polysomes from DENR knockdown cells

Project description:The aim was to identify transcripts that are poorly translated upon knockdown of DENR. Lysates from control (GFP) and DENR knockdown S2 cells were run on polysome gradients. RNA from the (80S peak + polysome peaks) was isolated and analyzed by microarrays. In parallel, total RNA from the cells was also profiled as a normalization control and profiled. The 'translation score' of translated mRNA to total RNA was then calculated for control and DENR knockdown cells.

2014-06-30 | GSE54625 | GEO

mRNA loading on polysomes in skeletal muscle of Eif6 heterozygous mice

Project description:Gastrocnemius muscle from Eif6 heterozygous mice and wild-type mice was used in a polysome profiling experiment. Total RNA was extracted from the whole muscle and from monosome/polysome fractions and profiled using Agilent gene expression arrays.

2018-07-07 | GSE116715 | GEO

Polysomes

Project description:Translational profiles of wild type yeast strains were identified by microarray analysis by isolating polysomes using sucrose gradients to recover polysome-associated RNA and comparing polysome-associated RNA vs total RNA

2013-04-05 | GSE45797 | GEO

Polysomes

2013-04-05 | E-GEOD-45797 | biostudies-arrayexpress

Changes in transcript abundance and association with large polysomes in response to hypoxia stress

Project description:7d-old WT ler seedlings were submitted to 12h of non-stress (air) or hypoxia-stress treatment under low light conditions (45 uM m-2 s-2), and Total and Large Polysome RNA from both treatments were extracted and hybridized against Affymetrix genome chips. Values were used to evaluate changes in transcript abundance and transcript association with large polysomal complexes. TABLE 1 - Comparison between transcript abundance in non-stress and hypoxia-stress conditions. TABLE 2 - Comparison between transcript abundance in large polysome complexes (5 or more ribosomes per mRNA) in non-stress and 12 hypoxia-stress conditions. TABLE 3 - Proportion of total transcript that is associated with large polysome complexes (polysome loading) under non-stress conditions. Raw data (not normalized) TABLE 4 - Proportion of total transcript that is associated with large polysome complexes (polysome loading) under 12h of hypoxia-stress. Raw data (not normalized) Keywords: time-course

2005-05-31 | GSE2218 | GEO

Polysomes after EIF4E6 RNAi

Project description:Bloodstream-form EATRO1125 T. brucei with or without induction of EIF4E6 RNAi, total RNA and polysome fractions. Samples 13, 27, 30, uploaded fine but were flagged as erroneous by the system, we do not know why. A new round of compression didn't help.

2022-05-20 | E-MTAB-11714 | biostudies-arrayexpress

Reconsidering Movement of Eukaryotic mRNAs Between Polysomes and P-bodies

Project description:This SuperSeries is composed of the following subset Series: GSE31220: Polysome-associated mRNA levels upon glucose repletion GSE31392: Timecourse of total and polysome-associated mRNA levels post glucose deprivation Refer to individual Series

2011-09-04 | E-GEOD-31393 | biostudies-arrayexpress

The Translation Initiation Factor eIF3h Targets Specific Transcripts to Polysomes during Embryogenesis

Project description:We have sequenced the polysome-associated translating mRNAs from stage-matched wild-type and eif3ha morphant embryos at ~24 hpf stage to identify transcripts translationally regulated by eIF3ha. As a control, we have also sequenced total mRNAs from the stage-matched wild-type and eif3ha morphants as well at ~ 24 hpf.

2013-06-05 | GSE44584 | GEO

Transcription profiling of Arabidopsis under hypoxia stress to assess proportion of transcript associated with large polysomes

Project description:7d-old WT ler seedlings were submitted to 12h of non-stress (air) or hypoxia-stress treatment under low light conditions (45 uM m-2 s-2), and Total and Large Polysome RNA from both treatments were extracted and hybridized against Affymetrix genome chips. Values were used to evaluate changes in transcript abundance and transcript association with large polysomal complexes. TABLE 1 - Comparison between transcript abundance in non-stress and hypoxia-stress conditions. TABLE 2 - Comparison between transcript abundance in large polysome complexes (5 or more ribosomes per mRNA) in non-stress and 12 hypoxia-stress conditions. TABLE 3 - Proportion of total transcript that is associated with large polysome complexes (polysome loading) under non-stress conditions. Raw data (not normalized); TABLE 4 - Proportion of total transcript that is associated with large polysome complexes (polysome loading) under 12h of hypoxia-stress. Raw data (not normalized)

2008-06-11 | E-GEOD-2218 | biostudies-arrayexpress

Ribosome profiling of polysomes from mouse brains

Project description:We performed ribosome profiling of polysomes (Poly-RIBOseq) to monitor translation of RNAs associated with polysomes in brain extracts from a mouse model Keywords: ribosome profiling, translation, polysome profiling, Poly-RIBOseq

2018-07-13 | GSE102318 | GEO

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