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Sample GSM1377719 Query DataSets for GSM1377719
Status Public on Apr 01, 2015
Title MEFE4F1_H07_RasV12KOE4F1_RepA_Cy5
Sample type RNA
 
Source name MEF, p53-/-,Ha-RasV12, E4F1 -/-
Organism Mus musculus
Characteristics strain/background: mixed (C57BL/6; 129Sv/J)
genotype/variation: p53-/-,Ha-RasV12, E4F1 -/-
tissue: 13.5-day embryo
cell type: mouse embryonic fibroblasts
Treatment protocol E4F1 depletion is achieved three days after MEFs infection with a self-excising CRE-recombinase-encoding retrovirus.
Growth protocol Cells were grown at 37°C in Dulbecco's modified medium supplemented with 10% Fetal Bovine Serum, glutamax, pyruvate and 4.5g/l D-glucose under 5% CO2, 100% saturated H2O incubator.
Extracted molecule total RNA
Extraction protocol Total RNA has been recovered with kits RNeasy® Mini from Qiagen.
Label Cy5
Label protocol For the preparation of the Cy3- and Cy5-labelled aRNA target, one microgram of total RNA samples were amplified and labelled using Amino Allyl Message Amp II aRNA amplification kit (Ambion, Austin, TX, USA), according to the manufacturer's instructions.
 
Hybridization protocol The two labelled aRNA were mixed, fragmented and hybridized on one array of a NimbleGen 12-plex microarray according to the manufacturer's instructions.
Scan protocol Scanned on an Innopsys Innoscan900 scanner.
Description Sample 14
Replicate A
J3 post infection with a self-excising CRE-recombinase-encoding retrovirus.
Data processing Images were quantified using NimbleScan V2.5. The raw data were normalized by Loess (Limma Package). Analyses of the differentially expressed genes have been performed with LIMMA packages (limma*.txt) and SAM packages (sam*.txt) with an FDR of 1% or 5%.
 
Submission date May 01, 2014
Last update date Apr 01, 2015
Contact name Claude Sardet
E-mail(s) claude.sardet@inserm.fr
Organization name Institut de Recherche en Cancérologie de Montpellier (IRCM)
Department Inserm U1194 - Université de Montpellier - Institut Régional du Cancer de Montpellier (ICM)
Street address 208 rue des Apothicaires
City Montpellier
ZIP/Postal code 34298
Country France
 
Platform ID GPL15902
Series (2)
GSE57240 Expression analysis of p53-/- and p53-/-, Ha-RasV12-transformed MEFs upon E4F1 gene inactivation
GSE57242 The transcription factor E4F1 coordinates CHK1-dependent checkpoint and mitochondrial functions

Data table header descriptions
ID_REF
VALUE Loess-normalized signal intensity

Data table
ID_REF VALUE
AK147958P00348 104.934
AK005544P00417 42.7275
AK077163P00057 90.384
BC051461P02014 57.7587
BC131950P00514 38.9848
AK220217P02202 162.037
BC051940P01262 42.3673
AK132676P01040 1094.09
AK015552P00527 78.8336
RANDOM00003194 35.4547
BC050243P01652 96.4025
BC005474P01931 372.125
BC021400P01109 61.4326
AK171642P01074 294.986
AK169759P03287 127.427
BC061043P00047 589.367
AK089654P03102 238.106
AK043334P02174 70.8464
AK169675P00936 104.611
XM_001480274P03445 87.5057

Total number of rows: 137488

Table truncated, full table size 3123 Kbytes.




Supplementary file Size Download File type/resource
GSM1377719_502344_A07.probe.gz 3.2 Mb (ftp)(http) PROBE
Processed data included within Sample table
Processed data are available on Series record

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