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Sample GSM585575 Query DataSets for GSM585575
Status Public on Jul 02, 2013
Title MEF b1wt_L8 rep 2
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 E13.10
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 16A3L8_2
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
E-mail(s) Ext-Gunilla.Hognas@vtt.fi
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
ID_REF
VALUE quantile normalized signal intensity
Detection Pval

Data table
ID_REF VALUE Detection Pval
ILMN_2896528 2911.033563 0
ILMN_2721178 787.2733063 0
ILMN_3033922 1235.921688 0
ILMN_3092673 4204.277375 0
ILMN_2816356 163.8583875 0.001253133
ILMN_2808939 1631.69775 0
ILMN_2634564 747.685225 0
ILMN_2737647 69.21399813 0.254386
ILMN_2734484 474.20425 0
ILMN_2952292 243.5289938 0
ILMN_2699078 55.54461 0.6478696
ILMN_1213681 256.5447125 0
ILMN_2735413 59.25854313 0.5162907
ILMN_2735415 58.65203188 0.5325814
ILMN_2891688 547.0210375 0
ILMN_2637698 1113.183113 0
ILMN_2674228 479.9896938 0
ILMN_2601546 95.31809688 0.04636591
ILMN_1230831 54.94296813 0.679198
ILMN_2848071 80.12909188 0.1278196

Total number of rows: 25697

Table truncated, full table size 807 Kbytes.




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

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