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Sample GSM289048 Query DataSets for GSM289048
Status Public on Mar 31, 2008
Title X1736925551_C
Sample type RNA
 
Source name EGL P0 Ts1Cje
Organism Mus musculus
Characteristics Strain : B6EiC3SnF1/J A/a
Genotype : Ts1Cje
Stage : P0
Tissue : dissected External Granular Layer
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from frozen individual dissected cerebellar external granular layer and treated with DNAse using RNeasy Minikit (Qiagen) in accordance with the manufacturer's protocol. RNA quality and quantity were then checked on the Agilent 2100 Bioanalyzer with RNA 6000 NanoChips (Agilent Technologies).
Label biotin
Label protocol 50ng of total RNA was labeled using TotalPrep RNA Amplification kit from Ambion following the manufacturer's instructions.
 
Hybridization protocol Hybridization was performed by Integragen (Evry - France) following Illumina's instructions.
Scan protocol Scan was performed by Integragen (Evry - France) following Illumina's instructions with standard scan factors.
Description Illumina provides one expression value per gene corresponding to the mean of at least 20 beads on the microarray. Genes were considered to be expressed if their detection p-value (provided by Illumina) was less than 0.01.
Data processing Filtered data were processed under R software for normalization by the mean and Student t-test.
 
Submission date May 16, 2008
Last update date Dec 23, 2008
Contact name Julien Laffaire
E-mail(s) julien.laffaire@espci.fr
Organization name ESPCI - CNRS UMR 7637
Lab Neurobiologie et diversité cellulaire
Street address 10 rue Vauquelin
City Paris
ZIP/Postal code 75005
Country France
 
Platform ID GPL6105
Series (1)
GSE11472 Gene expression signature of cerebellum hypoplasia in a mouse model of Down syndrome (Part II).

Data table header descriptions
ID_REF
VALUE Normalized log2 signal
SIGNAL_RAW Average signal
Detection_pval illumina detection p-value

Data table
ID_REF VALUE SIGNAL_RAW Detection_pval
ILMN_1212602 5.67901251570305 48.25264 0.6219589
ILMN_1212603 5.71297175146342 49.40192 0.5458515
ILMN_1212605 8.13380061907159 264.5367 0
ILMN_1212607 5.83328105396294 53.6983 0.3399875
ILMN_1212608 5.78397821993051 51.89421 0.4135995
ILMN_1212610 5.66070977780321 47.64435 0.6593887
ILMN_1212612 8.4926317926218 339.2383 0
ILMN_1212614 5.71490371034559 49.46812 0.5446039
ILMN_1212616 5.54869773413483 44.08516 0.8590143
ILMN_1212619 6.4190384102961 80.59184 0.01996257
ILMN_1212623 5.63686226369573 46.86327 0.7018091
ILMN_1212625 9.55241163527254 707.1807 0
ILMN_1212626 5.6982535599437 48.90049 0.5801622
ILMN_1212628 5.77062117409429 51.41597 0.4348097
ILMN_1212632 7.58502740933192 180.8376 0
ILMN_1212633 6.34903448073543 76.77464 0.02620087
ILMN_1212636 10.5433453083418 1405.501 0
ILMN_1212637 9.0031215721491 483.2564 0
ILMN_1212639 8.00541429821991 242.0125 0
ILMN_1212644 5.58268960206513 45.1362 0.8103556

Total number of rows: 46632

Table truncated, full table size 2159 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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