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Sample GSM585576 Query DataSets for GSM585576
Status Public on Jul 02, 2013
Title MEF b1wt_L0 rep 1
Sample type RNA
Source name Mouse embryonic fibroblast
Organism Mus musculus
Characteristics strain: C57BL/6
genotype/variation: B1 wildtype
cell type: Mouse embryonic fibroblast
developmental stage: prepared from E13.11
sex: female
immortalization: SV-40 large T
Treatment protocol The b1YYFF integrin mutation renders MEFs incapable of executing cytokinesis on b1 integrin specific matrixes. Repeated cytokinesis failure was induced by plating the clones on the β1 specific matrix component laminin in serum-free hybridoma medium over night. Normal medium was added the following day to allow for adhesion via β1 and β3 integrins and thus execution of normal cytokinesis. This procedure was repeated 4 or 8 times after which the cells were grown under normal conditions on plastic.
Growth protocol MEFs were grown in high clucose DMEM supplemented with 10% FBS, 1% L-glutamine and 1% Penicillin/Streptomycin
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using QIAGEN RNeasy mini handbook protocol.
Label biotin
Label protocol For the Illumina gene expression analysis, 100 ng of purified total RNA was amplified and biotinylated in an overnight in vitro transcription reaction using the Illumina RNA TotalPrepTM amplification kit (Ambion, Applied Biosystems).
Hybridization protocol Standard Illumina hybridization protocol
Scan protocol Standard Illumina scanning protocol
Description 16A3Lo_1
Data processing The data were normalized using quantile normalisation with limma in R
Submission date Aug 20, 2010
Last update date Jul 02, 2013
Contact name Gunilla Högnäs
Organization name VTT
Department Medical Biotechnology
Street address Tykistökatu 6 B
City Turku
ZIP/Postal code 20521
Country Finland
Platform ID GPL6885
Series (1)
GSE23729 The effect of aneuploidy on gene expression

Data table header descriptions
VALUE quantile normalized signal intensity
Detection Pval

Data table
ID_REF VALUE Detection Pval
ILMN_2896528 2340.76625 0
ILMN_2721178 638.5897063 0
ILMN_3033922 901.3492313 0
ILMN_3092673 2711.588625 0
ILMN_2816356 196.965275 0
ILMN_2808939 1084.52855 0
ILMN_2634564 929.6878688 0
ILMN_2737647 74.88868125 0.179198
ILMN_2734484 268.09215 0
ILMN_2952292 241.531925 0
ILMN_2699078 61.52131 0.414787
ILMN_1213681 345.9834563 0
ILMN_2735413 47.62691 0.952381
ILMN_2735415 62.48308563 0.3859649
ILMN_2891688 586.834725 0
ILMN_2637698 1362.541563 0
ILMN_2674228 544.727225 0
ILMN_2601546 99.50556063 0.03258145
ILMN_1230831 66.846075 0.2969925
ILMN_2848071 94.45961813 0.04636591

Total number of rows: 25697

Table truncated, full table size 804 Kbytes.

Supplementary data files not provided
Raw data are available on Series record
Processed data included within Sample table

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