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Sample GSM544 Query DataSets for GSM544
Status Public on Jul 30, 2001
Title lexA 10' after UV vs. 0', MG1655
Sample type RNA
 
Channel 1
Source name 0', before UV treatment, 25 ug total RNA, 2 ug pdN6
Organism Escherichia coli
Extracted molecule total RNA
 
Channel 2
Source name lexA 10 min after UV treatment, 25 ug total RNA, 2 ug pdN6
Organism Escherichia coli
Extracted molecule total RNA
 
 
Description Category: DNA metabolism
Subcategory: UV radiation
Scanning Software: ScanAlyze
Software version: 2.24
Scanning parameters:
Lot batch = lexa_uv10
 
Submission date Jul 30, 2001
Last update date Nov 21, 2005
Organization Stanford Microarray Database (SMD)
E-mail(s) array@genome.stanford.edu
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 GPL18
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
1 252 243 6593 6881 6575 311 306 329 7070 7399 0 0 .101 .955 71 72 1.003 .933 .997 1.072 0 1234 177 38 53 56 71 .101
2 247 231 949 1215 929 296 286 308 999 1306 .847 0 .074 .934 53 50 1.022 .95 .979 1.053 .847 1050 177 38 53 76 91 .074
3 254 237 6144 6670 6375 310 295 317 6855 7172 0 0 .158 1.039 58 68 .964 .896 1.038 1.116 0 1050 177 38 53 96 111 .158
4 256 241 1056 1407 1109 313 298 320 1192 1513 .868 0 .175 1.09 55 59 .952 .886 1.05 1.129 .867 1050 177 38 53 116 131 .175
5 266 248 3858 4189 3885 321 304 327 4177 4504 0 0 .115 1.021 59 63 .993 .924 1.007 1.083 0 1045 177 38 53 136 151 .115
6 316 260 6726 7036 6722 349 314 338 7228 7566 0 0 .104 .985 63 67 1.001 .931 .999 1.075 0 1118 177 36 51 157 172 .104
7 335 265 322 8 351 314 338 9 346 .093 0 1.75 2 5 0 .122 1160 177 36 51 177 192
8 296 265 4 311 4 333 307 330 4 334 .029 0 .105 1.261 3 4 1 .93 1 1.075 .034 1184 177 36 51 197 212 .105
9 272 263 9 329 21 322 308 331 23 354 0 1.327 1.75 3 3 .429 .399 2.333 2.509 1134 177 36 51 217 232 1.327
10 269 258 4 331 22 322 309 332 24 356 .156 0 2.564 1.761 3 7 .182 .169 5.5 5.914 .286 1104 177 36 51 237 252 2.564
11 264 254 17 316 9 315 307 330 10 340 .087 0 -.813 1.324 2 4 1.889 1.757 .529 .569 .121 1126 177 36 51 257 272 -.813
12 268 259 11 319 5 318 314 338 5 343 .144 0 -1.033 1.627 5 3 2.2 2.046 .455 .489 .166 1171 177 36 51 277 292 -1.033
13 271 261 14 303 321 314 338 -12 326 .401 0 .909 6 5 .338 1199 177 36 51 297 312
14 276 261 15 316 1 326 315 339 1 340 .09 0 -3.802 1.176 4 6 15 13.95 .067 .072 .117 1140 177 37 52 317 332 -3.802
15 282 266 6 305 327 318 342 -14 328 .078 0 1.4 1 3 .113 1112 177 37 52 337 352
16 278 264 11 314 1 324 313 337 1 338 .377 0 -3.355 1.318 2 5 11 10.23 .091 .098 .478 1112 177 37 52 357 372 -3.355
17 268 257 12 319 9 318 310 333 10 343 .159 0 -.31 1.548 3 3 1.333 1.24 .75 .806 .197 1112 177 37 52 377 392 -.31
18 269 258 5 298 316 310 333 -13 320 .262 0 1.075 3 2 .236 1112 177 37 52 397 412
19 269 259 304 315 307 330 -3 327 0 1.333 3 2 0 1260 177 37 52 417 432
20 254 247 2 304 314 307 330 -3 327 .234 0 1.8 2 5 .36 1046 177 56 71 58 73

Total number of rows: 5764

Table truncated, full table size 719 Kbytes.




Supplementary data files not provided

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