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Sample GSM27217 Query DataSets for GSM27217
Status Public on Sep 01, 2004
Title Sporulation gerE mutant Hour 6.5 exp. 3
Sample type RNA
 
Channel 1
Source name wild type (strain PY79)
Organism Bacillus subtilis
Extracted molecule total RNA
 
Channel 2
Source name gerE mutant (strain PE454)
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. Six 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 22, 2004
Last update date Oct 28, 2005
Contact name Patrick Yves Eichenberger
E-mail(s) peichenb@mcb.harvard.edu
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
1 534 549 126 148 155 68 563 576 137 152 159 67 -0.0938793 0 0.937
2 253 262 83 153 156 53 307 307 88 159 162 40 -0.5563933 0 0.68
3 485 513 141 153 158 52 483 502 118 156 159 39 0.0243203 0 1.017
4 679 708 225 156 163 74 563 591 197 162 163 42 0.3829443 0 1.304
5 685 699 298 158 163 54 744 784 315 161 163 50 -0.1472023 0 0.903
6 351 361 123 160 168 55 428 420 95 167 169 43 -0.4560093 0 0.729
7 296 320 96 161 164 51 368 378 84 163 166 41 -0.6038413 0 0.658
8 210 217 62 168 171 54 270 271 60 169 175 42 -100
9 276 275 80 168 171 54 285 292 69 168 171 39 -100
10 1298 1269 333 181 189 73 1011 1008 224 180 183 43 0.4276063 0 1.345
11 389 400 112 180 183 55 515 540 109 176 180 41 -0.6989983 0 0.616
12 516 514 105 177 183 56 636 661 176 180 181 42 -0.4266253 0 0.744
13 228 244 76 184 187 54 296 301 58 183 186 42 -100
14 207 221 71 187 190 55 249 245 49 186 189 42 -100
15 332 343 119 184 190 60 397 409 95 186 188 41 -0.5145733 0 0.7
16 260 263 78 187 193 57 293 298 64 187 190 46 -0.5311563 0 0.692
17 540 526 132 195 201 63 625 650 146 190 195 46 -0.3364283 0 0.792
18 200 210 75 155 159 55 234 234 51 155 160 44 -100
19 206 196 64 155 158 55 218 236 121 164 166 39 -100
20 414 472 216 156 161 53 422 464 192 159 162 40 -0.0276753 0 0.981

Total number of rows: 4623

Table truncated, full table size 299 Kbytes.




Supplementary file Size Download File type/resource
GSM27217-cy3.tif.gz 4.7 Mb (ftp)(http) TIFF
GSM27217-cy5.tif.gz 4.7 Mb (ftp)(http) TIFF

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