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Status
Public on Mar 31, 2006
Title
bhh treated 2
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 bhh treated 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
340.9
P
0.000147
AFFX-BioB-M_at
536.2
P
0.000044
AFFX-BioB-3_at
306.1
P
0.000044
AFFX-BioC-5_at
1164
P
0.000044
AFFX-BioC-3_at
943.3
P
0.000044
AFFX-BioDn-5_at
1848
P
0.000044
AFFX-BioDn-3_at
3549.9
P
0.00006
AFFX-CreX-5_at
8714.1
P
0.000044
AFFX-CreX-3_at
13293.8
P
0.000044
AFFX-DapX-5_at
22.6
A
0.382599
AFFX-DapX-M_at
22.4
A
0.382599
AFFX-DapX-3_at
3.1
A
0.941572
AFFX-LysX-5_at
3.5
A
0.724854
AFFX-LysX-M_at
3.3
A
0.834139
AFFX-LysX-3_at
9.9
A
0.48511
AFFX-PheX-5_at
4.5
A
0.724854
AFFX-PheX-M_at
1.1
A
0.937071
AFFX-PheX-3_at
4.1
A
0.9273
AFFX-ThrX-5_at
3.7
A
0.631573
AFFX-ThrX-M_at
6.6
A
0.672921
Total number of rows: 15611 Table truncated, full table size 504 Kbytes .Supplementary data files not provided