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Status
Public on Apr 18, 2006
Title
WDG14-19 WT 60min U Rep3
Sample type
RNA
Channel 1 Source name
WT untreated
Organism
Bacillus subtilis Characteristics
AG174 (WT) exponentially growing
Treatment protocol
A transcriptional response to replication status mediated by the conserved bacterial replication protein DnaA.
Growth protocol
Goranov AI, Katz L, Breier AM, Burge CB, Grossman AD.
Extracted molecule
total RNA
Extraction protocol
Goranov AI, Katz L, Breier AM, Burge CB, Grossman AD.
Label
Cy5
Label protocol
Goranov AI, Katz L, Breier AM, Burge CB, Grossman AD.
Channel 2 Source name
Pooled RNA
Organism
Bacillus subtilis Characteristics
Pooled Total RNA form frowing cells under various conditions
Extracted molecule
total RNA
Label
Cy3
Hybridization protocol
Goranov AI, Katz L, Breier AM, Burge CB, Grossman AD. Proc Natl Acad Sci U S A. 2005 Sep 6;102(36):12932-7. Epub 2005 Aug 24.
Description
Comperison of untreated sample with reference RNA
Data processing
Cy5/Cy3 ratio normalized to total signal from both channels. Spots with >80% pixels over bckgrnd were analyzed
Submission date
Apr 10, 2006
Last update date
Apr 18, 2006
Contact name
Alan D. Grossman
E-mail(s)
clee2@mit.edu, adg@mit.edu Phone
617-253-6702
Organization name
MIT
Department
Biology
Lab
Grossman
Street address
31 Ames Street, 68-530
City
Cambridge
State/province
MA
ZIP/Postal code
02142
Country
USA
Platform ID
GPL3645 Series (1)
GSE4673 Analysis of the transcriptional response to DNA damage and replication arrest
Data table header descriptions ID_REF VALUE Ratio of Cy5/Cy3 in log format (No background subtraction
signal_Cy5 Signal intensity at 635nm (Cy5)
Background_Cy5_Mean Background signal at 635nm (Cy5)
signal_Cy3 Signal intensity at 532nm (Cy3)
Background_Cy3_Mean Background signal at 532 (Cy3)
Data table ID_REF VALUE signal_Cy5 Background_Cy5_Mean signal_Cy3 Background_Cy3_Mean WDG14-3732
-0.076630078
323024
62
382720
73
WDG14-3825
-0.310528796
231088
62
321984
71
WDG14-3239
-0.166050799
147680
59
186160
67
WDG14-3862
-0.080159681
142116
66
168792
75
WDG14-4558
-0.12600813
482144
70
591136
78
WDG14-3929
1.343638057
435552
61
192816
68
WDG14-2217
0.43371372
1811316
64
1506648
70
WDG14-3970
0.384607406
1462240
69
1258400
75
WDG14-2962
0.28152291
2698956
58
2494752
69
WDG14-1610
0.534740515
661648
93
513136
89
WDG14-2324
-0.064591992
250848
54
294736
61
WDG14-1178
-0.349464294
1561248
51
2234856
57
WDG14-188
-0.050991923
38064
58
44304
63
WDG14-472
0.08034234
82992
69
88192
76
WDG14-1048
-0.107043631
45552
69
55120
74
WDG14-44
-0.108917364
50128
54
60736
62
WDG14-328
0.314737731
88192
58
79664
64
WDG14-4120
0.507936061
1100032
64
869120
70
WDG14-224
-0.192571857
50544
56
64896
63
WDG14-3152
0.382317106
619320
56
533832
65
4122 172 Kbytes .Supplementary data files not provided
