NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM789968 Query DataSets for GSM789968
Status Public on Sep 08, 2011
Title VisCortex_S421A_rep1_scA
Sample type RNA
 
Source name P17 visual cortex
Organism Mus musculus
Characteristics strain: P17
litter: 1
genotype/variation: MeCP2 S421A
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 12.7763
10338002 7.76724
10338003 11.2786
10338004 9.86793
10338005 3.52218
10338006 3.79636
10338007 4.18786
10338008 4.98335
10338009 10.3292
10338010 3.54604
10338011 7.02552
10338012 3.61524
10338013 3.40796
10338014 3.51068
10338015 3.43417
10338016 9.31425
10338017 13.8536
10338018 8.308
10338019 6.47874
10338020 10.3282

Total number of rows: 35556

Table truncated, full table size 586 Kbytes.




Supplementary file Size Download File type/resource
GSM789968_MG2009111816.CEL.gz 4.5 Mb (ftp)(http) CEL
GSM789968_MG2009111816.rma-gene-default.chp.gz 268.1 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap