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Sample GSM214216 Query DataSets for GSM214216
Status Public on Aug 31, 2007
Title Rhesus-PMd-R-1
Sample type RNA
 
Source name PMd, right hemisphere
Organism Macaca mulatta
Characteristics Gender: male, Age; 2.7 years
Treatment protocol Adequate measures were taken to minimize pain and discomfort, in accordance with the National Institute of Health Guide for the Care and Use of Laboratory Animals (NIH publication no. 80-23). Monkeys were perfused with 500-1000 ml of ice-cold saline containing heparin sodium (1000 units/ml, Novo Heparin, Leo Pharmaceutical Products, Ballerup, Denmark) through the ascending aorta within 15 minutes after an overdose injection of pentobarbital sodium (50 mg/kg, i.p., Somnopentyl, Kyoritsu Shoji, Tokyo, Japan). The four neocortical areas (M1, PMd, PMv and A46) were determined from sulcal landmarks. We used the “forelimb region” of the M1 for the present analysis, which was located around the superior genu of the central sulcus. The PMd and PMv were taken from the caudal bank of upper and lower limbs of the arcuate sulcus and their convex regions rostral to the M1, respectively. A46 was taken from both the upper and lower bank of the principal sulcus. Each area from right and left hemisphere was dissected on crushed ice and was immediately frozen in liquid nitrogen.
Extracted molecule total RNA
Extraction protocol The tissues were homogenized using a conventional rotor-stator homogenizer. Then total RNA was extracted from tissues using RNeasy Lipid Tissue Mini Kit (Qiagen, Valencia, CA). RNA was treated with DNase 1 (Qiagen) and was cleaned up using Qiagen RNeasy mini kit or Qiagen RNeasy MinElute kit (Qiagen).
Label biotin
Label protocol Standard Affymetrix Protocols (Affymetrix GeneChip Expression Analysis Technical Manual) was used. Complete protocal can be found manufacturer's web site
 
Hybridization protocol Standard Affymetrix Protocols (Affymetrix GeneChip Expression Analysis Technical Manual) was used. Complete protocal can be found manufacturer's web site
Scan protocol GeneChips were scanned using the GeneChip Scanner 3000 with default parameter.
Description Animal had been bred in group cages without any experimental treatments.
Data processing Data were analyzed using the RMA algorithm using the GeneSpring GX 7.3 software (Agilent Technologies).
 
Submission date Aug 01, 2007
Last update date Aug 14, 2011
Contact name Toshio Kojima
Organization name Toyohashi University of Technology
Department Health Care Center
Street address 1-1 Hibarigaoka Tenpaku-cho
City Toyohashi
ZIP/Postal code 441-8580
Country Japan
 
Platform ID GPL3535
Series (1)
GSE8644 Differentially expressed genes among motor and prefrontal areas of macaque monkey neocortex

Data table header descriptions
ID_REF
VALUE RMA-normalized Signal intensity

Data table
ID_REF VALUE
AFFX-BioB-3_at 175.8
AFFX-BioB-5_at 197.8
AFFX-BioB-M_at 298.1
AFFX-BioC-3_at 521.6
AFFX-BioC-5_at 479.8
AFFX-BioDn-3_at 3079
AFFX-BioDn-5_at 1667
AFFX-CreX-3_at 8248
AFFX-CreX-5_at 6371
AFFX-DapX-3_at 382.7
AFFX-DapX-5_at 90.07
AFFX-DapX-M_at 244.3
AFFX-LysX-3_at 66.6
AFFX-LysX-5_at 14.02
AFFX-LysX-M_at 38.21
AFFX-Mmu-actin-3_s_at 9223
AFFX-Mmu-actin-5_at 4520
AFFX-Mmu-actin-M_at 3223
AFFX-Mmu-actin-M_x_at 4708
AFFX-Mmu-ef1a-3_x_at 9447

Total number of rows: 52865

Table truncated, full table size 1412 Kbytes.




Supplementary file Size Download File type/resource
GSM214216.CEL.gz 4.8 Mb (ftp)(http) CEL
Processed data included within Sample table

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