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Sample GSM13264 Query DataSets for GSM13264
Status Public on Feb 09, 2004
Title liver, 48h starved, chip 15
Sample type RNA
 
Channel 1
Source name pool1, normal
Organism Mus musculus
Extracted molecule total RNA
 
Channel 2
Source name pool1, starved
Organism Mus musculus
Extracted molecule total RNA
 
 
Description Mice used in this study were 129/sv males, 8-15 weeks of age, which were housed individually and received water ad libitum. Total RNA and polyA RNA were prepared for each animal separately, and equal amounts of polyA RNA from each batch were pooled. Pool1 normal = 3 animals (No. N1, N2 and N3) fed during and before the 48h experiment with standard food, ad libitum; pool1 starved = 3 animals (No. St1, St2 and St3) fed before the experiment with standard food, ad libitum, starved during the 48h experiment.
The microarray was scanned 3 times: low scan (suffix _L in data table) with a low amplification / intensity to avoid saturated spots for proper data analysis, high scan (suffix _H in data table) with a high amplification / intensity to detect also weak fluorescent spots which are missed in the low scan and medium scan which lies between high and low intensity and gives additional data points for subsequent calculations. For additional information see publication and web link.
Keywords = nutrient response
Keywords = starvation
Keywords = liver
Keywords = anti-aging
Keywords = longevity
Lot batch = mp7_026
 
Submission date Dec 04, 2003
Last update date May 28, 2005
Contact name Michael J. Pankratz
E-mail(s) [email protected]
Phone ++49 +7247 82 6087
Fax ++49 +7247 82 3354
URL http://www.fzk.de/microarray
Organization name Forschungszentrum Karlsruhe
Department Institute of Genetics
Lab Pankratz
Street address P.O. Box 3640
City Karlsruhe
ZIP/Postal code 76021
Country Germany
 
Platform ID GPL765
Series (2)
GSE852 liver, 48h starved
GSE858 Mouse feeding experiment

Data table header descriptions
ID_REF
VALUE log2 ratio, loess normalized, multiplied with -1 (dye swap)
DIA_L spot diameter, used as quality parameter
CH1_BKG_L CH1 (B635) median background intensity, used in quality estimation
CH1_SAT_L CH1 (F635) percentage of saturated foreground pixel, used to discriminate saturated spots
CH2_BKG_L CH2 (B532) median background intensity, used in quality estimation
CH2_SAT_L CH1 (F532) percentage of saturated foreground pixel, used to discriminate saturated spots
RATIOS_SD_L standard deviation of pixel to pixel linear ratio (CH1/CH2) (F635/F535), used as a quality parameter
F_AREA_L number of foreground pixel for both channels
B_AREA_L number of background pixel for both channels
CH1_MEDIAN_L CH1 (F635-B635) median foreground intensity minus median background intensity, used as basic value for calculations
CH2_MEDIAN_L CH2 (F532-B532) median foreground intensity minus median background intensity, used as basic value for calculations
FLAG_L quality flag of picture analysis software, if flag < 0 the spot is discarded from subsequent analysis
DIA_M spot diameter, used as quality parameter
CH1_BKG_M CH1 (B635) median background intensity, used in quality estimation
CH1_SAT_M CH1 (F635) percentage of saturated foreground pixel, used to discriminate saturated spots
CH2_BKG_M CH2 (B532) median background intensity, used in quality estimation
CH2_SAT_M CH1 (F532) percentage of saturated foreground pixel, used to discriminate saturated spots
RATIOS_SD_M standard deviation of pixel to pixel linear ratio (CH1/CH2) (F635/F535), used as a quality parameter
F_AREA_M number of foreground pixel for both channels
B_AREA_M number of background pixel for both channels
CH1_MEDIAN_M CH1 (F635-B635) median foreground intensity minus median background intensity, used as basic value for calculations
CH2_MEDIAN_M CH2 (F532-B532) median foreground intensity minus median background intensity, used as basic value for calculations
FLAG_M quality flag of picture analysis software, if flag < 0 the spot is discarded from subsequent analysis
DIA_H spot diameter, used as quality parameter
CH1_BKG_H CH1 (B635) median background intensity, used in quality estimation
CH1_SAT_H CH1 (F635) percentage of saturated foreground pixel, used to discriminate saturated spots
CH2_BKG_H CH2 (B532) median background intensity, used in quality estimation
CH2_SAT_H CH1 (F532) percentage of saturated foreground pixel, used to discriminate saturated spots
RATIOS_SD_H standard deviation of pixel to pixel linear ratio (CH1/CH2) (F635/F535), used as a quality parameter
F_AREA_H number of foreground pixel for both channels
B_AREA_H number of background pixel for both channels
CH1_MEDIAN_H CH1 (F635-B635) median foreground intensity minus median background intensity, used as basic value for calculations
CH2_MEDIAN_H CH2 (F532-B532) median foreground intensity minus median background intensity, used as basic value for calculations
FLAG_H quality flag of picture analysis software, if flag < 0 the spot is discarded from subsequent analysis

Data table
ID_REF VALUE DIA_L CH1_BKG_L CH1_SAT_L CH2_BKG_L CH2_SAT_L RATIOS_SD_L F_AREA_L B_AREA_L CH1_MEDIAN_L CH2_MEDIAN_L FLAG_L DIA_M CH1_BKG_M CH1_SAT_M CH2_BKG_M CH2_SAT_M RATIOS_SD_M F_AREA_M B_AREA_M CH1_MEDIAN_M CH2_MEDIAN_M FLAG_M DIA_H CH1_BKG_H CH1_SAT_H CH2_BKG_H CH2_SAT_H RATIOS_SD_H F_AREA_H B_AREA_H CH1_MEDIAN_H CH2_MEDIAN_H FLAG_H
A#1 100 45 0 45 0 2.886 80 400 5 11 -50 100 120 0 134 0 2.891 80 400 52 77 -50 100 625 0 668 0 2.732 80 404 221 445 -50
A#10 -0.315232728 90 46 0 45 0 1.545 52 346 43 49 0 80 112 0 130 0 1.721 52 260 354 371 0 90 551 0 607 0 1.596 52 311 2226 2263 0
A#100 -0.937607799 60 48 0 46 0 2.492 32 139 12 22 0 80 128 0 137 0 2.673 52 208 123 133 0 70 806 0 722 0 3.478 32 176 820 793 0
A#1000 0.077374953 100 46 0 48 0 1.71 80 291 40 60 0 100 115 0 134 0 1.864 80 291 257 418 0 100 590 0 638 0 1.614 80 286 1859 2590 0
A#10000 -0.182339101 100 43 0 42 0 1.332 80 259 82 89 0 110 95 0 93 0 1.299 80 266 541 623 0 110 386 0 376 0 1.344 80 202 3604 3687 0
A#10001 0.23003648 110 43 0 41 0 1.458 80 263 62 103 0 100 92 0 94 0 1.286 80 247 467 715 0 100 424 0 397 0 1.327 80 237 3012 4103 0
A#10002 0.332607377 110 43 0 42 0 1.32 80 256 121 180 0 110 93 0 89 0 1.254 80 227 731 1253 0 110 422 0 395 0 1.28 80 260 5094 7155 0
A#10003 -0.285770436 110 43 0 42 0 1.354 80 254 94 102 0 110 94 0 88 0 1.293 80 233 603 691 0 110 403 0 393 0 1.279 80 275 4931 3975 0
A#10004 0.114487071 110 43 0 42 0 1.142 80 240 357 469 0 110 93 0 91 0 1.165 80 244 2196 3209 0 110 417 0 409 0 1.128 80 269 16438 18873 0
A#10005 0.308627644 110 44 0 42 0 1.33 80 253 91 138 0 110 93 0 95 0 1.317 80 267 563 969 0 110 412 0 399 0 1.311 80 258 3921 5572 0
A#10006 -0.446290153 110 43 0 42 0 1.155 80 240 391 362 0 110 98 0 98 0 1.156 80 298 2576 2390 0 110 438 0 387 0 1.134 80 235 18861 13655 0
A#10007 0.136756531 120 43 0 42 0 1.25 120 226 213 292 0 110 95 0 101 0 1.206 80 294 1373 1941 0 120 474 0 401 0 1.242 120 226 9043 11093 0
A#10008 0.16984689 110 44 0 42 0 1.29 80 232 156 214 0 110 92 0 99 0 1.234 80 294 963 1456 0 110 458 0 398 0 1.193 80 232 6748 8865 0
A#10009 -0.031279347 100 42 0 42 0 1.823 80 261 25 40 0 100 88 0 90 0 1.992 80 270 158 276 0 100 434 0 366 0 1.921 80 253 1133 1628 0
A#1001 0.115576831 100 46 0 47 0 1.678 80 274 51 80 0 100 111 0 132 0 1.576 80 266 354 526 0 100 552 0 626 0 1.615 80 274 2531 3253 0
A#10010 -0.383622217 110 42 0 42 0 1.19 80 283 278 251 0 110 88 0 88 0 1.167 80 268 1786 1751 0 110 406 0 365 0 1.155 80 268 12837 10229 0
A#10011 -0.217991387 110 42 0 42 0 1.286 80 260 134 131 0 110 91 0 89 0 1.316 80 250 840 925 0 110 370 0 380 0 1.254 80 285 5908 5509 0
A#10012 0.254955634 100 43 0 42 0 1.388 80 224 49 83 0 110 84 0 87 0 1.457 80 222 353 593 0 100 371 0 363 0 1.378 80 235 2174 3299 0
A#10013 100 45 0 42 0 1.922 80 216 21 35 -50 100 83 0 90 0 2.164 80 183 171 256 -50 100 427 0 394 0 2.332 80 216 883 1368 -50
A#10014 0.013312273 110 44 0 43 0 1.333 80 255 92 116 0 110 86 0 94 0 1.305 80 202 594 817 0 110 424 0 405 0 1.399 80 249 4087 4589 0

Total number of rows: 43200

Table truncated, full table size 5560 Kbytes.




Supplementary data files not provided

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