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Sample GSM27514 Query DataSets for GSM27514
Status Public on Sep 01, 2004
Title Sporulation gerR mutant Hour 3.5 exp. 3
Sample type RNA
 
Channel 1
Source name gerR+ (strain PE454)
Organism Bacillus subtilis
Extracted molecule total RNA
 
Channel 2
Source name gerR mutant (strain SW282)
Organism Bacillus subtilis
Extracted molecule total RNA
 
 
Description Strains PE454 and SW282 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. Three 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 SW282.
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 27, 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 6127 6483 1662 266 271 80 6231 6497 1621 287 289 70 -0.0203403 0 0.986
2 1218 1206 330 265 274 80 1421 1409 361 289 294 62 -0.2481083 0 0.842
3 7076 6944 1780 275 287 91 6717 6629 1776 304 311 73 0.0854253 0 1.061
4 5388 5230 1332 305 319 98 6770 6773 1928 336 340 82 -0.3400753 0 0.79
5 2113 2198 587 323 331 96 3193 3296 914 352 357 89 -0.6665763 0 0.63
6 896 933 235 334 343 90 1155 1203 325 356 360 75 -0.5084033 0 0.703
7 1767 1790 436 323 331 94 2116 2097 462 358 362 94 -0.2845463 0 0.821
8 578 585 142 309 313 87 709 724 135 328 335 68 -0.5022603 0 0.706
9 886 906 237 288 294 80 999 985 235 312 340 501 -0.2009133 0 0.87
10 9360 9247 2411 282 306 326 8488 8200 2129 305 349 911 0.1492593 0 1.109
11 3724 3610 998 280 286 79 5597 5333 1586 307 312 61 -0.6192713 0 0.651
12 2457 2428 601 293 297 87 3759 3780 768 312 314 62 -0.6711643 0 0.628
13 694 697 161 288 295 80 942 961 223 316 317 61 -0.6237103 0 0.649
14 491 513 156 292 300 91 617 668 221 312 316 73 -0.6170563 0 0.652
15 1821 1853 470 297 299 81 2082 2091 560 319 321 63 -0.2108973 0 0.864
16 743 724 178 293 301 87 2892 2849 779 319 322 61 -2.5145733 0 0.175
17 1914 1945 368 292 302 86 1998 2024 347 323 324 64 -0.0469213 0 0.968
18 528 576 216 263 269 79 627 659 219 282 284 60 -0.3808223 0 0.768
19 469 485 132 264 272 77 845 835 175 287 291 66 -1.4461483 0 0.367
20 2561 2578 886 272 278 79 3988 4013 1514 289 292 58 -0.6919893 0 0.619

Total number of rows: 4623

Table truncated, full table size 312 Kbytes.




Supplementary file Size Download File type/resource
GSM27514-cy3.tif.gz 4.9 Mb (ftp)(http) TIFF
GSM27514-cy5.tif.gz 5.0 Mb (ftp)(http) TIFF

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