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Sample GSM506 Query DataSets for GSM506
Status Public on Jul 30, 2001
Title 10min after UVtreatment 1', 40J, MG1655 in Davis+0.4%glu
Sample type RNA
 
Channel 1
Source name 10min UV treated cells, 25 ug total RNA
Organism Escherichia coli
Extracted molecule total RNA
 
Channel 2
Source name untreated cells, 25 ug total RNA
Organism Escherichia coli
Extracted molecule total RNA
 
 
Description Category: DNA damage
Subcategory: UV radiation
Scanning Software: ScanAlyze
Software version: 2.24
Scanning parameters:
Lot batch = uv10min
 
Submission date Jul 30, 2001
Last update date Nov 21, 2005
Organization Stanford Microarray Database (SMD)
E-mail(s) [email protected]
Phone 650-498-6012
URL http://genome-www5.stanford.edu/
Department Stanford University, School of Medicine
Street address 300 Pasteur Drive
City Stanford
State/province CA
ZIP/Postal code 94305
Country USA
 
Platform ID GPL17
Series (1)
GSE9 UV Exposure in Wild-Type and SOS-Deficient E. coli

Data table header descriptions
ID_REF
CH1B_MEAN mean channel 1 background
CH1B_MEDIAN median channel 1 background
CH1D_MEAN difference between CH1I_MEAN and CH1B_MEAN
CH2I_MEAN mean channel 2 signal
CH2D_MEAN difference of CH2I_MEAN and CH2B_MEAN
CH2B_MEAN mean of channel 2 background
CH2B_MEDIAN median of channel 2 background
CH2BN_MEDIAN normalized CH2B_MEDIAN
CH2DN_MEAN normalized CH2D_MEAN
CH2IN_MEAN normalized CH2I_MEAN
CORR simple correlation coefficient of channel 1 and channel 2 pixels
FLAG user defined flag (default=0)
VALUE same as UNF_VALUE but with flagged values removed
PIX_RAT2_MEDIAN
PERGTBCH1I_1SD standard deviation of fraction of pixels greater than CH1B_MEAN
PERGTBCH2I_1SD standard deviation of fraction of pixels greater than CH2B_MEAN
RAT1_MEAN ratio of CH1D_MEAN to CH2D_MEAN
RAT1N_MEAN ratio of CH1DN_MEAN to CH2DN_MEAN
RAT2_MEAN ratio of CH2D_MEAN to CH1D_MEAN
RAT2N_MEAN ratio of CH2DN_MEAN and CH1DN_MEAN
REGR slope of the simple regression line of channel 2 to channel 1 pixels
TOT_BPIX total number of background pixels
TOT_SPIX total number of signal (spot) pixels
TOP vertical, short-axis spot ellipse minimum pixel coordinate
BOT vertical, short-axis spot ellipse maximum pixel coordinate
LEFT horizontal, long-axis spot ellipse minimum pixel coordinate
RIGHT horizontal, long-axis spot ellipse maximum pixel coordinate
UNF_VALUE aka LOG_RAT2N_MEAN, or log2 of ratio of CH2DN_MEAN and CH1DN_MEAN

Data table
ID_REF CH1B_MEAN CH1B_MEDIAN CH1D_MEAN CH2I_MEAN CH2D_MEAN CH2B_MEAN CH2B_MEDIAN CH2BN_MEDIAN CH2DN_MEAN CH2IN_MEAN CORR FLAG VALUE PIX_RAT2_MEDIAN PERGTBCH1I_1SD PERGTBCH2I_1SD RAT1_MEAN RAT1N_MEAN RAT2_MEAN RAT2N_MEAN REGR TOT_BPIX TOT_SPIX TOP BOT LEFT RIGHT UNF_VALUE
1 4048 4033 7330 12411 9837 2572 2574 3478 13293 16772 0 0 .859 1.321 60 66 .745 .551 1.342 1.814 0 1166 256 44 62 129 147 .859
2 4079 4073 6100 10537 7959 2600 2578 3484 10755 14239 0 0 .818 1.392 62 67 .766 .567 1.305 1.763 0 1038 256 45 63 151 169 .818
3 4146 4129 2914 5489 2856 2645 2633 3558 3859 7418 0 0 .405 .967 57 62 1.02 .755 .98 1.324 0 1054 256 45 63 174 192 .405
4 4176 4159 4430 7353 4694 2675 2659 3593 6343 9936 0 0 .518 1.033 61 65 .944 .698 1.06 1.432 0 1021 256 46 64 196 214 .518
5 4177 4165 3765 6724 4060 2681 2664 3600 5486 9086 0 0 .543 1.067 60 63 .927 .686 1.078 1.457 0 1036 256 46 64 218 236 .543
6 4192 4184 5310 8066 5414 2674 2652 3584 7316 10900 0 0 .462 1.024 64 66 .981 .726 1.02 1.378 0 1021 256 47 65 240 258 .462
7 4216 4217 2651 17 2646 2634 3559 23 3582 0 0 .856 0 0 0 1043 256 47 65 262 280
8 4425 4234 2657 9 2765 2648 3578 12 3591 0 0 .795 0 0 0 1086 256 47 65 284 302
9 4490 4268 2739 72 2791 2667 3604 97 3701 0 0 1.089 0 0 0 1071 256 48 66 306 324
10 4317 4278 2632 2673 2652 3584 -27 3557 0 0 .929 0 0 0 1055 256 48 66 328 346
11 4216 4198 20 2590 29 2588 2561 3461 39 3500 0 0 .97 .652 0 0 .69 .51 1.45 1.959 0 1027 256 49 67 350 368 .97
12 4160 4121 2554 55 2584 2499 3377 74 3451 0 0 .779 0 0 0 1053 256 49 67 372 390
13 4165 4070 2339 2567 2474 3343 -182 3161 .06 0 .805 0 0 .04 1023 256 50 68 395 413
14 4239 4181 2528 15 2557 2513 3396 20 3416 0 0 .611 0 0 0 1036 256 50 68 417 435
15 4292 4253 2604 52 2624 2552 3449 70 3519 0 0 .895 0 0 0 1055 256 51 69 439 457
16 4305 4255 2602 26 2607 2576 3481 35 3516 0 0 .894 0 0 0 1072 256 51 69 461 479
17 4341 4287 2609 31 2596 2578 3484 42 3526 0 0 .841 0 0 0 1041 256 52 70 483 501
18 4264 4252 18 2589 25 2573 2564 3465 34 3499 0 0 .908 .575 0 0 .72 .533 1.389 1.877 0 1192 256 52 70 505 523 .908
19 4027 4008 64 2677 61 2626 2616 3535 82 3618 -.168 0 .365 .815 0 0 1.049 .776 .953 1.288 -.125 1045 256 66 84 129 147 .365
20 4046 4008 2612 30 2640 2582 3489 41 3530 .03 0 .978 0 0 .024 894 256 67 85 151 169

Total number of rows: 4896

Table truncated, full table size 616 Kbytes.




Supplementary data files not provided
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