E-MEXP-3544 - Transcription profiling by array of human malignant melanoma cell line, A375, following interferon-gamma-induced gene transcription

Status
Released on 24 August 2012, last updated on 3 June 2014
Organism
Homo sapiens
Samples (10)
Array (1)
Protocols (6)
Description
MicroRNAs are major regulators of post-transcriptional gene regulation. Even small changes in miRNA levels may have profound consequences for the expression levels of target genes. Hence, miRNAs themselves need to be tightly, albeit dynamically, regulated. Here, we investigated the dynamic behaviour of miRNAs over a wide time range following transcriptional activation of melanoma cells by interferon-? (IFN-?), which activates the transcription factor STAT1. By applying several software packages for analyses, visualisation and identification of differentially expressed miRNAs derived from time-series microarray experiments, 8.9% (98) of 1102 miRNAs appeared to be directly or indirectly regulated by STAT1. Focussing on distinct dynamic expression patterns, we found that the majority of differentially expressed miRNAs were up-or down-regulated in the intermediate time range (24 h - 48 h), one (miR-27a*) was up-regulated early (already at 18 h), while none reacted late (after 72 h – 96 h). Expression of individual miRNAs was altered gradually over time or it abruptly increased between two time points. Furthermore, we have observed co-ordinated dynamic transcription of several clustered miRNAs. However, we also detected that some of those can be regulated independently of their genetic cluster. Most interestingly, several “star” or passenger strand sequences were specifically regulated over time while their “guide” strands were not.
Experiment types
transcription profiling by array, cellular modification, co-expression, replicate, time series
Contact
Citations
Interplay of microRNAs, transcription factors and target genes: linking dynamic expression changes to function. Petr V. Nazarov; Susanne E. Reinsbach; Arnaud Muller; Nathalie Nicot; Demetra Philippidou; Laurent Vallar; Stephanie Kreis. Nucleic Acids Res 41(5):2817 (2013), Europe PMC 23335783
Dynamic regulation of microRNA expression following Interferon-γ-induced gene transcription. Reinsbach S, Nazarov PV, Philippidou D, Schmitt M, Wienecke-Baldacchino A,Muller A, Vallar L, Behrmann I, Kreis S. Source. RNA Biology  (2012)
MIAME
PlatformsProtocolsFactorsProcessedRaw
Files
Investigation descriptionE-MEXP-3544.idf.txt
Sample and data relationshipE-MEXP-3544.sdrf.txt
Raw data (1)E-MEXP-3544.raw.1.zip
Array designA-AFFY-184.adf.txt
R ExpressionSetE-MEXP-3544.eSet.r
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