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Sample GSM27283 Query DataSets for GSM27283
Status Public on Sep 01, 2004
Title Sporulation sigmaK mutant Hour 4.5 exp. 1
Sample type RNA
 
Channel 1
Source name sigmaK+ (PE454)
Organism Bacillus subtilis
Extracted molecule total RNA
 
Channel 2
Source name sigmaK mutant (PE455)
Organism Bacillus subtilis
Extracted molecule total RNA
 
 
Description Strains PE455 and PE454 were grown in parallel in hydrolysed casein medium at 37°C to an OD600 of 0.6. Sporulation was induced by resuspension in Sterlini-Mandelstam medium at 37C. Four hour and thirty minutes after resuspension, 25 ml of each culture were collected for RNA isolation and immediately mixed with an equal volume of methanol at –20C.
RNA was isolated with a Hot Phenol/Trizol procedure.
cDNA was prepared from 50 ug tot RNA and fluorescently labeled using Superscript Reverse Transcriptase and Cy5-dUTP for the RNA sample from strain PE454 and Cy3-dUTP for the RNA sample from strain PE455.
Protocols for RNA isolation, cDNA preparation and labeling, hybridization to the microarrays and washing procedure can be found at http://mcb.harvard.edu/losick
This is the first repetition of the experiment at this time point.
 
Submission date Jul 23, 2004
Last update date Oct 28, 2005
Contact name Patrick Yves Eichenberger
E-mail(s) [email protected]
Phone 617-495-0532
Fax 617-496-4642
URL http://mcb.harvard.edu/losick
Organization name Harvard University
Department Molecular and Cellular Biology
Lab Losick
Street address 16 Divinity Avenue
City Cambridge
State/province MA
ZIP/Postal code 02138
Country USA
 
Platform ID GPL1353
Series (1)
GSE1620 Sporulation in Bacillus subtilis (mother cell)

Data table header descriptions
ID_REF
CH1_MEDIAN channel1 median signal
CH1_MEAN channel1 mean signal
CH1_SD channel1 signal standard deviation
CH1_BKD_MEDIAN channel1 median background
CH1_BKD_MEAN channel1 mean background
CH1_BKD_SD channel1 background standard deviation
CH2_MEDIAN channel2 median signal
CH2_MEAN channel2 mean signal
CH2_SD channel2 signal standard deviation
CH2_BKD_MEDIAN channel2 median background
CH2_BKD_MEAN channel2 mean background
CH2_BKD_SD channel2 background standard deviation
VALUE log ratio (log2 of PRE_VALUE)
FLAGS user defined flag (default=0, bad=-100, empty=-75)
PRE_VALUE ratio channel1 median signal minus median background and channel2 median signal minus median background, not normalized

Data table
ID_REF CH1_MEDIAN CH1_MEAN CH1_SD CH1_BKD_MEDIAN CH1_BKD_MEAN CH1_BKD_SD CH2_MEDIAN CH2_MEAN CH2_SD CH2_BKD_MEDIAN CH2_BKD_MEAN CH2_BKD_SD VALUE FLAGS PRE_VALUE
1 637 645 207 227 234 70 986 999 377 314 323 95 -0.7131193 0 0.61
2 350 364 113 228 229 68 574 565 145 306 310 62 -1.1360623 0 0.455
3 435 458 150 228 239 114 720 745 196 310 336 218 -0.9856453 0 0.505
4 865 829 253 235 252 125 979 983 262 315 337 176 -0.0755203 0 0.949
5 488 516 135 234 235 65 546 561 125 316 316 62 0.1427403 0 1.104
6 252 273 82 232 240 95 430 433 118 316 330 340 -100
7 360 373 124 233 240 73 591 641 348 324 332 116 -1.0709673 0 0.476
8 304 303 73 241 252 81 509 512 120 335 357 151 -1.4659383 0 0.362
9 302 500 652 245 251 81 506 1327 2461 326 338 102 -1.6574453 0 0.317
10 561 605 362 241 247 69 924 959 364 325 328 67 -0.9050883 0 0.534
11 350 376 127 244 253 81 587 789 1099 327 331 68 -1.2933593 0 0.408
12 304 314 78 248 252 80 578 584 107 333 342 82 -2.1265803 0 0.229
13 310 339 153 245 251 70 525 584 317 330 335 68 -1.5864063 0 0.333
14 261 264 72 254 266 125 417 421 81 332 342 128 -100
15 364 379 102 253 259 71 569 593 135 331 339 75 -1.1015983 0 0.466
16 317 311 77 252 259 70 530 537 98 331 335 61 -1.6126373 0 0.327
17 614 675 336 251 254 70 854 954 594 341 351 95 -0.4981793 0 0.708
18 246 256 79 223 230 68 374 385 88 325 335 96 -1.0923403 0 0.469
19 293 469 674 226 232 76 468 1368 3685 326 327 68 -1.0831413 0 0.472
20 440 442 161 226 236 99 566 588 124 317 327 109 -0.2192703 0 0.859

Total number of rows: 4623

Table truncated, full table size 312 Kbytes.




Supplementary file Size Download File type/resource
GSM27283-cy3.tif.gz 5.6 Mb (ftp)(http) TIFF
GSM27283-cy5.tif.gz 5.6 Mb (ftp)(http) TIFF

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