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Sample GSM501474 Query DataSets for GSM501474
Status Public on Dec 01, 2011
Title quiescent p27delta51 MEFs
Sample type RNA
 
Source name delta51
Organism Mus musculus
Characteristics cell type: MEFs
genotype/variation: p27delta51
Treatment protocol For serum starvation, cells were maintained without serum during 72 h.
Growth protocol Wt and p27delta51 MEFs were cultured in DMEM supplemented with 10% fetal bovin serum (FBS). All cultures were maintained at 37ºC and 5% CO2.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using the RNeasy Kit (QIagen). RNAs from quiescent MEFs from wt or delta51 mice were analyzed using a Bioanalyzer (Agilent). Only samples with RIN number greater than 9 and a ratio A260/280 over than 2 were further used in microarray analysis. Retrotranscription was made followed by labeling with biotin.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol
 
Hybridization protocol Following fragmentation, cRNA were hybridized for 16 hr at 45ºC on Affymetrix 430 2.0 murine array. Chips were washed and stained in the Affymetrix Fluidics Station.
Scan protocol Arrays were scanned using the Scanner Axon 4000B
Description Gene expression data from p27delta51 MEFs cells
Data processing The normalization of the arrays was done using the rma method as implemented in the Affy package of R Bioconductor. Quality control measurements were done using ArrayQualityMetrics package of R Bioconductor.
 
Submission date Jan 27, 2010
Last update date Dec 01, 2011
Contact name oriol bachs
E-mail(s) obachs@ub.edu, raffaellapippa@ub.edu
Phone 636574156
Fax 0034-934021907
Organization name University of Barcelona
Department Cell Biology, Immunology and Neurosciences
Street address Casanova 143
City Barcelona
ZIP/Postal code 08036
Country Spain
 
Platform ID GPL1261
Series (2)
GSE20064 Expression data from p27delta51 MEFs cells in quiescence
GSE20069 p27Kip1 regulates transcription of genes involved in tumorigenesis

Data table header descriptions
ID_REF
VALUE normalized signal intensity
Detection
Detection p-value

Data table
ID_REF VALUE Detection Detection p-value
1415670_at 1413.4 P 0
1415671_at 1863.4 P 0
1415672_at 1605.4 P 0
1415673_at 479.1 P 0
1415674_a_at 614.3 P 0
1415675_at 344.4 P 0
1415676_a_at 1332.7 P 0
1415677_at 338.6 P 0
1415678_at 785.5 P 0
1415679_at 1152.1 P 0
1415680_at 425.6 P 0
1415681_at 802.9 P 0
1415682_at 225.1 P 0
1415683_at 1123.8 P 0
1415684_at 189.9 P 0
1415685_at 404 P 0
1415686_at 553.5 P 0
1415687_a_at 3238.6 P 0
1415688_at 856.3 P 0
1415689_s_at 235.4 P 0

Total number of rows: 45101

Table truncated, full table size 968 Kbytes.




Supplementary file Size Download File type/resource
GSM501474.CEL.gz 3.3 Mb (ftp)(http) CEL
Processed data included within Sample table
Processed data are available on Series record

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