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Sample GSM490230 Query DataSets for GSM490230
Status Public on Jun 04, 2010
Title mPFC_SocP60_5
Sample type RNA
 
Source name Brain, fresh dissection immedited following cull
Organism Rattus norvegicus
Characteristics strain: Wistar
tissue: brain (medial prefrontal cortex)
growth protocol: socially-reared
age: postnatal day 60
Treatment protocol Half the rats were housed on isolation see Murphy et al., 2010. At the appropriate postnatal age animals were culled and the medial prefrontal cortex dissected rapidly nad snap frozen in liquid nitrogen.
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Label Biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 7 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
 
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome 230 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Scan protocol GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Description Sample name: cl10120523
Data processing The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
Data filtering criteria linked as supplementary file on Series GSE19653 record.
 
Submission date Dec 24, 2009
Last update date Jun 03, 2010
Contact name Keith J Murphy
E-mail(s) keith.murphy@ucd.ie
Organization name University College Dublin
Department School of Biomolecular and Biomedical Science
Lab Applied Neurotherapeutics Research Group
Street address UCD Conway Institute, Belfield
City Dublin
ZIP/Postal code Dublin4
Country Ireland
 
Platform ID GPL1355
Series (1)
GSE19653 Temporal dysregulation of cortical gene expresssion in the isolation-reared Wistar rat

Data table header descriptions
ID_REF
VALUE log2 (MAS5.0 signal intensity)

Data table
ID_REF VALUE
1388389_at 9.200113919
1370116_at 5.873567152
1386955_at 10.85497744
1387436_at 7.126910926
1374513_at 11.19515686
1367698_a_at 7.844109421
1386906_a_at 5.879215637
1398752_at 9.991139155
1369997_at 7.492654371
1397351_s_at 6.078524445
1388427_at 6.047232996
1376459_at 10.53283317
1394490_at 5.526381863
1383355_at 5.175524601
1369161_at 5.246408087
1370464_at 5.976363636
1370583_s_at 4.135863165
1370465_at 4.927422429
1384906_at 7.036063689
1388004_at 9.193155707

Total number of rows: 20304

Table truncated, full table size 456 Kbytes.




Supplementary file Size Download File type/resource
GSM490230.CEL.gz 3.0 Mb (ftp)(http) CEL
Processed data included within Sample table

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