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Sample GSM27278 Query DataSets for GSM27278
Status Public on Sep 01, 2004
Title Sporulation gerE mutant Hour 5.5 exp. 3
Sample type RNA
 
Channel 1
Source name wild type (PY79 strain)
Organism Bacillus subtilis
Extracted molecule total RNA
 
Channel 2
Source name gerE mutant (PE454 strain)
Organism Bacillus subtilis
Extracted molecule total RNA
 
 
Description Strains PY79 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. Five 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 PY79 and Cy3-dUTP for the RNA sample from strain PE454.
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 third 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 1305 1268 485 227 279 798 1135 1106 382 273 319 857 0.3219283 0 1.25
2 499 531 156 226 234 61 571 578 89 271 275 50 -0.1376483 0 0.909
3 1029 1061 271 225 234 88 980 960 248 272 275 49 0.1826923 0 1.135
4 1239 1278 367 224 227 63 1258 1319 345 271 280 120 0.0398403 0 1.028
5 1071 1123 311 223 229 62 1174 1236 371 272 277 120 -0.0892673 0 0.94
6 458 499 332 223 225 58 642 654 210 277 281 51 -0.6326293 0 0.645
7 526 520 122 219 223 56 654 646 104 278 284 72 -0.2880653 0 0.819
8 321 330 87 218 220 56 445 449 73 276 274 42 -0.7107563 0 0.611
9 498 495 100 218 221 54 484 500 92 274 274 41 0.4200783 0 1.338
10 1524 1521 381 218 221 56 1379 1390 297 270 272 43 0.2363403 0 1.178
11 464 480 115 218 224 58 693 724 156 271 273 40 -0.7759603 0 0.584
12 541 554 117 213 231 188 703 716 133 272 284 168 -0.3883553 0 0.764
13 313 317 74 221 231 175 429 447 86 273 284 155 -0.7563313 0 0.592
14 338 345 87 227 224 52 461 463 69 280 284 148 -0.7107563 0 0.611
15 442 454 127 219 223 54 533 549 93 277 278 41 -0.1992553 0 0.871
16 336 341 82 218 223 53 470 472 65 272 276 42 -0.7441973 0 0.597
17 492 487 127 213 216 57 650 650 127 274 280 111 -0.4285663 0 0.743
18 611 611 125 236 240 64 631 647 122 279 285 72 0.0894983 0 1.064
19 389 399 102 232 240 71 462 459 74 273 279 58 -100
20 814 832 327 226 236 87 788 801 259 279 285 61 0.2091413 0 1.156

Total number of rows: 4623

Table truncated, full table size 303 Kbytes.




Supplementary file Size Download File type/resource
GSM27278-cy3.tif.gz 5.5 Mb (ftp)(http) TIFF
GSM27278-cy5.tif.gz 5.3 Mb (ftp)(http) TIFF

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