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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
E-mail Lars.Doelken@uni-wuerzburg.de
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
Relations
BioProject PRJNA109065

Download family Format
SOFT formatted family file(s) SOFTHelp
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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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