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Status
Public on Mar 31, 2006
Title
Untreated 3
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)
craltmann@gmail.com 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
185.6
P
0.000446
AFFX-BioB-M_at
274.5
P
0.000044
AFFX-BioB-3_at
164.1
P
0.000044
AFFX-BioC-5_at
687.7
P
0.000052
AFFX-BioC-3_at
607.8
P
0.000044
AFFX-BioDn-5_at
1126.5
P
0.000044
AFFX-BioDn-3_at
2199
P
0.000081
AFFX-CreX-5_at
7673.6
P
0.000044
AFFX-CreX-3_at
11271.7
P
0.000044
AFFX-DapX-5_at
16.4
A
0.250796
AFFX-DapX-M_at
12.7
A
0.514891
AFFX-DapX-3_at
1.7
A
0.993129
AFFX-LysX-5_at
1.1
A
0.9273
AFFX-LysX-M_at
3
A
0.824672
AFFX-LysX-3_at
3.3
A
0.645547
AFFX-PheX-5_at
2.5
A
0.963431
AFFX-PheX-M_at
0.5
A
0.953518
AFFX-PheX-3_at
3.6
A
0.860518
AFFX-ThrX-5_at
3.9
A
0.824672
AFFX-ThrX-M_at
14.5
A
0.354453
15611 504 Kbytes .Supplementary data files not provided
