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Sample GSM27288 Query DataSets for GSM27288
Status Public on Sep 01, 2004
Title Sporulation spoIIID mutant Hour 3.5 exp. 1
Sample type RNA
 
Channel 1
Source name spoIIID+ (strain PE456)
Organism Bacillus subtilis
Extracted molecule total RNA
 
Channel 2
Source name spoIIID mutant (strain PE452)
Organism Bacillus subtilis
Extracted molecule total RNA
 
 
Description Strains PE452 and PE456 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 PE452 and Cy3-dUTP for the RNA sample from strain PE456.
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 1076 1075 320 273 286 109 1119 1088 246 407 422 140 0.1737673 0 1.128
2 421 443 135 283 287 85 614 636 136 404 411 88 -0.6060353 0 0.657
3 799 823 322 270 286 93 829 871 307 409 419 110 0.3334243 0 1.26
4 369 407 164 278 291 92 596 604 120 408 426 145 -1.0469213 0 0.484
5 401 434 147 289 340 751 608 616 127 416 441 208 -0.7784323 0 0.583
6 319 340 116 299 309 95 525 545 112 425 431 91 -2.3219283 0 0.2
7 574 600 178 285 295 90 864 877 242 423 434 94 -0.6104333 0 0.655
8 319 356 170 299 321 160 615 673 382 441 453 125 -3.1202943 0 0.115
9 365 365 83 297 307 94 559 555 85 435 443 101 -0.8677523 0 0.548
10 1200 1199 410 304 313 90 1047 1107 424 438 444 85 0.5567973 0 1.471
11 476 495 155 311 346 327 656 666 149 445 497 482 -0.3547593 0 0.782
12 432 467 168 315 346 267 642 692 520 466 521 464 -0.5885743 0 0.665
13 401 390 102 325 336 125 581 578 111 456 466 112 -0.7178573 0 0.608
14 325 340 172 322 334 118 513 514 119 461 473 151 -100
15 449 474 120 325 366 623 633 650 122 466 492 472 -0.4285663 0 0.743
16 397 447 211 328 341 101 639 803 962 481 489 99 -1.1942953 0 0.437
17 939 973 281 326 340 103 1121 1139 269 489 496 102 -0.0439433 0 0.97
18 326 339 104 283 300 188 506 545 235 409 445 400 -1.1746213 0 0.443
19 320 326 105 283 291 95 498 504 105 404 412 167 -100
20 490 505 181 282 302 182 546 544 130 411 437 425 0.6238673 0 1.541

Total number of rows: 4623

Table truncated, full table size 307 Kbytes.




Supplementary file Size Download File type/resource
GSM27288-cy3.tif.gz 5.7 Mb (ftp)(http) TIFF
GSM27288-cy5.tif.gz 5.6 Mb (ftp)(http) TIFF

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