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Sample GSM281274 Query DataSets for GSM281274
Status Public on May 30, 2008
Title Hypothalamus-Mecp2-null C57BL/6J-biological rep4
Sample type RNA
 
Source name Hypothalamus, Mecp2-null
Organism Mus musculus
Characteristics genotype: Mecp2-null
gender: male
age: 6 weeks
strain: C57BL/6J
strain: C57BL/6J
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from the hypothalamus of 6 weeks old male mice using TRIzol reagent, DNaseI treated, and purified using the RNeasy mini kit, all according to the manufacturers protocols
Label biotin
Label protocol Total RNA was reverse transcribed to produce double-stranded cDNA. The cDNA product was used as a template for the in vitro transcription reaction, producing biotin-labeled
 
Hybridization protocol Following fragmentation of 15.0 mg of the labeled cRNA, a hybridization cocktail containing Affymetrix spike-in controls and fragmented labeled cRNA was loaded onto a GeneChip array. The array was hybridized 16 hours
Scan protocol The array was stained using the EukGEws2v5 protocol on the Fluidics Station 450. The stained array was scanned on the Affymetrix GeneChip Scanner 3000.
Description Gene expression data
Data processing The images were analyzed and quality control metrics recorded using Affymetrix GCOS software version 1.1 and scale factor of 500. Subsequently, R based analysis using exonmap package and rma normalization
 
Submission date Apr 11, 2008
Last update date May 23, 2008
Contact name Maria Chahrour
E-mail(s) chahrour@bcm.tmc.edu
Phone 713-798-6695
Organization name Baylor College of Medicine
Department Molecular and Human Genetics
Street address 1 Baylor Plaza, T836
City Houston
State/province TX
ZIP/Postal code 77098
Country USA
 
Platform ID GPL6193
Series (1)
GSE11150 Hypothalamic gene expression data from Mecp2-null and MECP2-transgenic mice

Data table header descriptions
ID_REF Affy ExonArray ProbeID
VALUE RMA Calculated Normalized Value

Data table
ID_REF VALUE
4304920 2.3
4304921 2.87
4304922 2.83
4304923 6.74
4304925 8.36
4304927 2.66
4304928 11.74
4304929 9.54
4304930 2.76
4304931 3.14
4304932 3.06
4304933 2.27
4304934 3.41
4304935 3.62
4304937 10.49
4304938 2.69
4304939 2
4304940 4.56
4304941 5.72
4304942 8.17

Total number of rows: 1201338

Table truncated, full table size 15142 Kbytes.




Supplementary file Size Download File type/resource
GSM281274.CEL.gz 38.4 Mb (ftp)(http) CEL
Processed data included within Sample table
Processed data are available on Series record

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