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Series GSE10011 Query DataSets for GSE10011
Status Public on Sep 30, 2009
Title Expression data from NIH-3T3 cells used for half-life determination
Organism Mus musculus
Experiment type Expression profiling by array
Summary Data from tc-, nt- and p-RNA as well as 1 and 2h of actinomycin-D treatment (5µg/ml) of NIH-3T3 cells used to determine half-lives. RNA was labeled for 15, 30 or 60 minutes with 4-thiouridine. After preparation of tc-RNA, thiol-labeled RNA was biotinylated using biot-HPDP and subsequently tc-RNA was separated into nt- and p-RNA using streptavidin coated magnetic beads. All three fractions were used for microarray analysis. For actinomycin-D experiments only tc-RNA was used prepared from cell before and 1 an 2h after addition of act-D.
We used microarrays to analyze the effects of 1 and 3h of IFNalpha and gamma treatment in total cellular RNA
Keywords: determination of RNA half-lives in NIH-3T3
Overall design NIH-3T3 cells ( 5th to 15th passage after thawing) were split from confluent plates 24h before start of the experiment. At the begin of the experiment about 80% confluency was reached. The experiment was started by applying fresh, prewarmed, CO2-equilibrated medium containing either 200µM 4sU (for 1h labeling), 500µM 4sU (for <=30min labeling) or 5µg/ml actinomycin-D.
Contributor(s) Dölken L, Ruzsics Z, Koszinowski UH
Citation(s) 19561200
Submission date Dec 21, 2007
Last update date Feb 11, 2019
Contact name Lars Dölken
Organization name University of Cambridge
Department Medicine
Lab Box 157, Level 5
Street address Addenbrookes Hospital, Hills Road
City Cambridge
State/province Cambridgeshire
ZIP/Postal code CB20QQ
Country United Kingdom
Platforms (1)
GPL1261 [Mouse430_2] Affymetrix Mouse Genome 430 2.0 Array
Samples (45)
GSM252936 before actinomycin D, tc-RNA Rep. 1
GSM252937 before actinomycin D, tc-RNA Rep. 2
GSM252938 before actinomycin D, tc-RNA Rep. 3
This SubSeries is part of SuperSeries:
GSE10026 High resolution gene expression profiling for simultaneous analysis of RNA synthesis, abundance and decay
BioProject PRJNA109065

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
GSE10011_RAW.tar 143.4 Mb (http)(custom) TAR (of CEL)
Raw data provided as supplementary file
Processed data included within Sample table

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