Transcriptomics

Dataset Information

40

Glucocorticoid effect on mRNA translation in childhood acute lymphoblastic leukemia


ABSTRACT: Glucocorticoids (GCs) are a central component in treating childhood acute lymphoblastic leukemia (chALL). They mainly act via regulating gene transcription. However, control of mRNA translation by GC has never been assessed systematically. In our research, T- and precursor B-ALL cells were cultured with and without GC for 6 hours and subjected to translational profiling, a technique combining sucrose gradient fractionation and microarray analysis of mRNA in different fractions. Analysis of GC regulation in different pools revealed no significant differences in regulation of mRNA translation by GC, suggesting no evidence for translational regulation by GC. Ribosome profiling by sucrose gradient fractionation followed by microarray analysis of RNA from 3 distinct pools representing free RNA (pool 1), RNA in small protein-RNA complexes or bound to single ribosomes (pool 2) and RNA from large protein-RNA complexes (polysomes, pool 3). See Material and Methods of the original article for a detailed description. Translational efficiency of genes was estimated by comparing the amount of a gene's mRNA in pool 3 with the total amount of mRNA of the gene (in all 3 pools). Translational regulation by GC was estimated by contrasting gene regulations in pool 3 with gene regulation between GC-treated and control samples in all 3 pools (depicted as transcriptional regulation). Moderated t-tests were used to assess significance for translational regulation.

ORGANISM(S): Homo sapiens  

SUBMITTER: Reinhard Kofler  Tatsiana Aneichyk   Daniel Bindreither   Johannes Rainer    

PROVIDER: E-GEOD-48680 | ArrayExpress | 2013-12-09

SECONDARY ACCESSION(S): GSE48680PRJNA211180

REPOSITORIES: GEO, ArrayExpress

altmetric image

Publications

Translational profiling in childhood acute lymphoblastic leukemia: no evidence for glucocorticoid regulation of mRNA translation.

Aneichyk Tatsiana T   Bindreither Daniel D   Mantinger Christine C   Grazio Daniela D   Goetsch Katrin K   Kofler Reinhard R   Rainer Johannes J  

BMC genomics 20131201


Glucocorticoids (GCs) are natural stress induced steroid hormones causing cell cycle arrest and cell death in lymphoid tissues. Therefore they are the central component in the treatment of lymphoid malignancies, in particular childhood acute lymphoblastic leukemia (chALL). GCs act mainly via regulating gene transcription, which has been intensively studied by us and others. GC control of mRNA translation has also been reported but has never been assessed systematically. In this study we investig  ...[more]

Similar Datasets

2006-08-02 | GSE5430 | GEO
2012-03-27 | E-GEOD-9563 | ArrayExpress
2008-05-14 | GSE9563 | GEO
2014-06-07 | E-GEOD-54581 | ArrayExpress
2012-11-06 | E-GEOD-38707 | ArrayExpress
2014-06-02 | E-GEOD-22012 | ArrayExpress
| GSE22012 | GEO
| GSE20277 | GEO
2014-05-01 | E-GEOD-20277 | ArrayExpress
2014-05-02 | E-MEXP-1180 | ArrayExpress