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Status
Public on Mar 31, 2006
Title
Untreated 1
Sample type
RNA
Source name
pronephric explant
Organism
Xenopus laevis Characteristics
Wild type, Stage 24 pronephric explant
Extracted molecule
total RNA
Extraction protocol
Pronephric region explants were prepared from stage 24 embryos using a gastromaster (Xenotek) with the tip set to a width of 70 microns. Rectangular explants, approximately 70 microns (dorsal to ventral) x 100 microns (anteriorposterior) and 70 microns (laterally) were cut from the flanks of both sides of embryos. 300 explants were extracted with Trizol (Gibco)
Label
biotin
Label protocol
1 µg of total RNA was processed using MessageAmp™ aRNA Amplification Kit (AMBION) to produce biotinylated cRNA targets.
Hybridization protocol
standard Affymetrix procedures
Scan protocol
standard Affymetrix procedures
Description
St 24 untreated pronephric explants
Data processing
Affymetrix Microarray Suite version 5.0
Submission date
Dec 01, 2005
Last update date
Jan 17, 2006
Contact name
Curtis R Altmann
E-mail(s)
[email protected] Phone
8506442925
Organization name
Goodwin Procter LLP
Street address
599 Lexington Avenue
City
New York
State/province
NY
ZIP/Postal code
10022
Country
USA
Platform ID
GPL1318 Series (1)
GSE3712 Bhh signaling in pronephric development
Data table header descriptions ID_REF VALUE MAS5-calculated Signal intensity
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-5_at
673
P
0.00011
AFFX-BioB-M_at
1035.9
P
0.000044
AFFX-BioB-3_at
585.1
P
0.000044
AFFX-BioC-5_at
2065.2
P
0.000052
AFFX-BioC-3_at
1706.7
P
0.000044
AFFX-BioDn-5_at
3162.1
P
0.000044
AFFX-BioDn-3_at
6841.9
P
0.00006
AFFX-CreX-5_at
19274.9
P
0.000044
AFFX-CreX-3_at
23906.4
P
0.000044
AFFX-DapX-5_at
41.9
A
0.116072
AFFX-DapX-M_at
27.4
A
0.216444
AFFX-DapX-3_at
2.4
A
0.991564
AFFX-LysX-5_at
19.5
A
0.340661
AFFX-LysX-M_at
10.7
A
0.876428
AFFX-LysX-3_at
21.9
A
0.227636
AFFX-PheX-5_at
7.1
A
0.574044
AFFX-PheX-M_at
11.9
A
0.772364
AFFX-PheX-3_at
10
A
0.760937
AFFX-ThrX-5_at
27.4
A
0.48511
AFFX-ThrX-M_at
52.1
A
0.156732
15611 504 Kbytes .Supplementary data files not provided
