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Sample GSM1530240 Query DataSets for GSM1530240
Status Public on Apr 23, 2015
Title primary_MYCN_GTML_10
Sample type RNA
 
Source name Excised Primary Tumour
Organism Mus musculus
Characteristics model: MYCN
tissue: primary
p53: WT
Extracted molecule total RNA
Extraction protocol RNA was extracted using the Qiagen AllPrep DNA/RNA mini kit (Qiagen, Hilden, Germany) according to manufacturer's instructions.Quality control was performed using an Agilent 2100 Bioanalyser.
Label biotin
Label protocol Approximately 200ng of each RNA was amplified and Biotinylated using the Illumina TotalPrep RNA amplification kit (Applied Biosystems, Foster City, CA. USA), with the size distribution of cRNA being assessed using the Agilent Bioanalyser.
 
Hybridization protocol Approximately 750ng of each cRNA was hybridised using the standard Illumina hybridization protocol
Scan protocol Standard Illumina scanning protocol
Description Mouse Model Chesler Primary - Group 3
Data processing processed using beadarray R/Bioconductor package with quantile normalisation
 
Submission date Oct 22, 2014
Last update date Apr 23, 2015
Contact name Ed Schwalbe
E-mail(s) ed.schwalbe@northumbria.ac.uk
Organization name Northumbria University
Department Applied Sciences
Street address Ellison Place
City Newcastle upon Tyne
ZIP/Postal code NE1 8ST
Country United Kingdom
 
Platform ID GPL6885
Series (2)
GSE62625 Combined MYC and TP53 defects emerge at medulloblastoma relapse and define rapidly progressive, therapeutically targetable disease [gene expression]
GSE62626 Combined MYC and TP53 defects emerge at medulloblastoma relapse and define rapidly progressive, therapeutically targetable disease

Data table header descriptions
ID_REF
VALUE log2 quantile normalized
Detection Pval

Data table
ID_REF VALUE Detection Pval
ILMN_2896528 10.6223957 0
ILMN_2721178 8.749475592 0
ILMN_3033922 8.46475254 0
ILMN_3092673 10.66999323 0
ILMN_2816356 6.636396641 0.1817043
ILMN_2808939 8.697166723 0
ILMN_2634564 8.527114238 0
ILMN_2737647 6.66369073 0.1077694
ILMN_2734484 7.969898027 0
ILMN_2952292 6.792191078 0.01253133
ILMN_2699078 6.576315225 0.5689223
ILMN_1213681 7.465890536 0
ILMN_2735413 6.545661906 0.7969925
ILMN_2735415 6.606899746 0.3220551
ILMN_2891688 8.140642611 0
ILMN_2637698 9.160492395 0
ILMN_2674228 7.852953353 0
ILMN_2601546 6.682262932 0.08145364
ILMN_1230831 6.646317023 0.1553885
ILMN_2848071 6.697961331 0.06015038

Total number of rows: 25697

Table truncated, full table size 807 Kbytes.




Supplementary file Size Download File type/resource
GSM1530240_8615501070_B_Grn.idat.gz 927.8 Kb (ftp)(http) IDAT
Processed data included within Sample table

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