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Sample GSM789975 Query DataSets for GSM789975
Status Public on Sep 08, 2011
Title VisCortex_WT_rep2_scH
Sample type RNA
 
Source name P17 visual cortex
Organism Mus musculus
Characteristics strain: P17
litter: 2
genotype/variation: WT
Treatment protocol Mice were sacrificed and visual cortex dissected. All mice were male littermates from one of two litters.
Growth protocol P17 mice (WT and MeCP2 S421A littermates) were grown under standard housing conditions.
Extracted molecule total RNA
Extraction protocol RNA was isolated by extraction using Trizol (invitrogen) according to the manufactures instructions, and then further purfied using qiagen minelute columns.
Label biotin
Label protocol Biotinylated cDNA were prepared according to the standard Affymetrix protocol from 100ng total RNA
 
Hybridization protocol 2 ug of Fragmented and Biotinylated cDNA were hybridized for 16 hr at 45C on Mouse Gene 1.0 ST microarray. GeneChips were washed and stained in the Affymetrix Fluidics Station 450
Scan protocol GeneChips were scanned using the Affymetrix Genechip Scanner 3000
Description P17 visual cortex RNA
Data processing Data were processed using Affymetrix Expression Console Version 1.1 RMA workflow, quantile normalization and general background correction. Differential expression analysis was performed using GeneSpring GX (Agilent technologies) and custom statistical analysis see methods of Cohen et al. neuron 2011 for details.
 
Submission date Sep 02, 2011
Last update date Sep 08, 2011
Contact name Harrison Wren Gabel
E-mail(s) harrison_gabel@hms.harvard.edu
Phone 617-512-0289
Organization name Harvard Medical School
Department Neurobiology
Lab Michael Greenberg
Street address 7 Linden St Apt 3
City Brookline
State/province MA
ZIP/Postal code 02445
Country USA
 
Platform ID GPL6246
Series (2)
GSE31850 Genome-wide activity-dependent MeCP2 phosphorylation regulates nervous system development and function [visual cortex]
GSE31851 Genome-wide activity-dependent MeCP2 phosphorylation regulates nervous system development and function

Data table header descriptions
ID_REF
VALUE log2 RMA

Data table
ID_REF VALUE
10338001 12.2745
10338002 6.89716
10338003 10.5606
10338004 9.31657
10338005 3.48541
10338006 3.63879
10338007 3.9503
10338008 4.54852
10338009 9.23284
10338010 3.48044
10338011 6.33726
10338012 3.55242
10338013 3.37297
10338014 3.40306
10338015 3.37788
10338016 8.27367
10338017 13.6089
10338018 7.38917
10338019 5.87096
10338020 9.08419

Total number of rows: 35556

Table truncated, full table size 586 Kbytes.




Supplementary file Size Download File type/resource
GSM789975_MG2009111823.CEL.gz 4.7 Mb (ftp)(http) CEL
GSM789975_MG2009111823.rma-gene-default.chp.gz 268.2 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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