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Series GSE48306 Query DataSets for GSE48306
Status Public on Jun 27, 2013
Title Orchestrated intron retention regulates normal granulocyte differentiation [Affymetrix arrays]
Organism Mus musculus
Experiment type Expression profiling by array
Summary Using mRNA-seq, we determined intron retaining genes that were differentially regulated in FACS purified cells at three progressive stages of mouse granulopoiesis; CD34+Kit+Gr-1low promyelocytes, CD34-Kit-Gr-1mid myelocytes and CD34-Kit-Gr-1high granulocytes. We found that IR affects 86 genes, including those specific to granulocyte (Lyz2 and MMP8) and nuclear architecture (Lmnb1 and Lbr). IR was associated with the decrease in protein levels measured by mass spectrometry (P=0.0015, binomial test). Inhibition of NMD in granulocytes resulted in marked accumulation of 39/86 intron retaining mRNAs (P<0.05, RUV procedure with Holm-Bonferroni correction), indicating that IR triggers NMD to downregulate mRNA and protein expression.
Overall design We used Affymetrix's Mouse Gene 1.0 ST array to determine accumulation of RNA-transcripts following inhibition of nonsense-mediated decay in primary mouse granulocytes using caffeine.
Contributor(s) Ritchie W, Wong J
Citation(s) 23911323
Submission date Jun 26, 2013
Last update date Mar 04, 2019
Contact name william ritchie
Organization name centenary institute
Street address Building 93
City Camperdown
State/province NSW
ZIP/Postal code 2050
Country Australia
Platforms (1)
GPL6246 [MoGene-1_0-st] Affymetrix Mouse Gene 1.0 ST Array [transcript (gene) version]
Samples (6)
GSM1174474 caffeine+ 1
GSM1174475 caffeine+ 2
GSM1174476 caffeine+ 3
This SubSeries is part of SuperSeries:
GSE48307 Orchestrated intron retention regulates normal granulocyte differentiation
BioProject PRJNA209626

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE48306_RAW.tar 24.8 Mb (http)(custom) TAR (of CEL)
Processed data included within Sample table

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