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Status
Public on Feb 23, 2007
Title
Thymus, technical replicate 1 at University of Nebraska Medical Center
Sample type
RNA
Source name
rhesus macaques thymus
Organism
Macaca mulatta Characteristics
Tissue: thymus
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 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix)
Hybridization protocol
Following fragmentation, the biotinylated cRNA were hybridized for 16 hr at 45C on GeneChip Rhesus Macaque Array
Scan protocol
GeneChips were scanned on Affymetrix scanner 3000
Description
Gene expression data from thymus
Data processing
The data were analyzed with Robust Multichip Analysis (RMA) using MAS background correction and quantile normalization within the center.
Submission date
Feb 21, 2007
Last update date
Feb 22, 2007
Contact name
Fenghai Duan
E-mail(s)
fduan@stat.brown.edu Phone
401-863-2175
Organization name
Brown University
Department
Biostatistics
Street address
121 S. Main Street
City
Providence
State/province
RI
ZIP/Postal code
02912
Country
USA
Platform ID
GPL3535 Series (1)
GSE7094 Expression data from 5 rhesus tissues at 3 centers
Data table header descriptions ID_REF VALUE RMA-calculated Signal intensity (with MAS Background correction)
ABS_CALL the call in an absolute analysis that indicates if the transcript was present (P), absent (A), marginal (M), or no call (NC)
DETECTION P-VALUE 'detection p-value', p-value that indicates the significance level of the detection call
Data table ID_REF VALUE ABS_CALL DETECTION P-VALUE AFFX-BioB-3_at
8.063346095
P
4.43E-05
AFFX-BioB-5_at
8.006859749
P
0.000126831
AFFX-BioB-M_at
8.480888815
P
4.43E-05
AFFX-BioC-3_at
9.573959782
P
4.43E-05
AFFX-BioC-5_at
9.36714086
P
4.43E-05
AFFX-BioDn-3_at
11.49042166
P
4.43E-05
AFFX-BioDn-5_at
10.57470031
P
4.43E-05
AFFX-CreX-3_at
12.66937735
P
4.43E-05
AFFX-CreX-5_at
12.57195357
P
5.17E-05
AFFX-DapX-3_at
9.575262378
P
4.43E-05
AFFX-DapX-5_at
7.973731953
P
5.17E-05
AFFX-DapX-M_at
9.438630893
P
0.000445958
AFFX-LysX-3_at
6.921125702
P
8.15E-05
AFFX-LysX-5_at
5.87899846
P
6.02E-05
AFFX-LysX-M_at
6.56164499
P
0.002275027
AFFX-Mmu-actin-3_s_at
13.05404607
P
0.001672877
AFFX-Mmu-actin-5_at
12.98529908
P
0.001672877
AFFX-Mmu-actin-M_at
13.05586995
P
0.001672877
AFFX-Mmu-actin-M_x_at
13.06188041
P
0.001672877
AFFX-Mmu-ef1a-3_x_at
13.95381025
P
0.001672877
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