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Sample GSM13245 Query DataSets for GSM13245
Status Public on Feb 09, 2004
Title liver, 48h sugar, chip 8
Sample type RNA
 
Channel 1
Source name pool1, normal
Organism Mus musculus
Extracted molecule total RNA
 
Channel 2
Source name pool1, sugar
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 sugar = 3 animals (No. Su1, Su2 and Su3) fed before the experiment with standard food, ad libitum, during the 48h experiment with 50% (w/v) sugar solution (40% glucose, 10% sucrose).
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 = mp8_013
 
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)
GSE851 liver, 48h sugar
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 68 0 82 0 3.191 80 418 7 20 -50 100 437 0 390 0 3.655 80 430 150 150 -50 100 1190 0 1579 0 4.099 80 415 480 614 -50
A#10 0.436655843 100 61 0 63 0 1.344 80 365 264 443 0 100 316 0 251 0 1.373 80 377 2579 3134 0 100 881 0 976 0 1.328 80 362 9453 13062 0
A#100 0.359722652 80 56 0 77 0 2.527 52 214 37 78 0 80 320 0 339 0 2.542 52 210 291 537 0 80 799 0 1371 0 2.889 52 220 1049 2282 0
A#1000 0.028281688 100 55 0 71 0 2.158 80 278 54 88 0 100 235 0 307 0 1.805 80 282 619 594 0 100 574 0 1211 0 1.928 80 282 2063 2641 0
A#10000 0.223387675 100 57 0 47 0 1.444 80 254 109 180 0 100 249 0 140 0 1.476 80 260 1150 1225 0 100 695 0 504 0 1.45 80 295 3860 5057 0
A#10001 -0.201741268 90 52 0 45 0 1.501 52 233 95 108 0 90 212 0 129 0 1.554 52 244 926 770 0 90 627 0 400 0 1.504 52 232 2989 3211 0
A#10002 -0.40886604 100 53 0 44 0 1.38 80 271 153 154 0 100 221 0 121 0 1.435 80 279 1464 1036 0 100 632 0 375 0 1.319 80 276 5093 4301 0
A#10003 0.31963518 100 54 0 45 0 1.318 80 267 216 345 0 100 239 0 116 0 1.3 80 263 2031 2368 0 100 665 0 378 0 1.292 80 263 7071 10047 0
A#10004 0.114513037 100 55 0 45 0 1.191 80 294 543 663 0 100 277 0 115 0 1.197 80 276 4991 4804 0 100 667 0 379 0 1.18 80 275 17540 19484 0
A#10005 -0.180066105 90 56 0 44 0 1.613 52 254 81 98 0 100 237 0 110 0 1.733 80 282 783 657 0 100 558 0 358 0 1.606 80 273 2565 2762 0
A#10006 0.130858694 100 55 0 44 0 1.213 80 296 345 486 0 100 222 0 113 0 1.26 80 283 3383 3438 0 100 613 0 376 0 1.231 80 290 12308 13883 0
A#10007 -0.046409805 100 54 0 45 0 1.277 80 274 330 410 0 100 246 0 119 0 1.274 80 278 3318 2885 0 100 616 0 400 0 1.222 80 272 10934 12003 0
A#10008 -0.157046719 100 54 0 46 0 1.275 80 271 284 312 0 100 244 0 118 0 1.258 80 265 2602 2221 0 100 588 0 391 0 1.26 80 251 8538 8868 0
A#10009 0.07930422 90 54 0 45 0 1.981 52 256 60 88 0 90 247 0 118 0 2.086 52 252 523 623 0 90 620 0 358 0 1.782 52 244 1999 2600 0
A#1001 0.14030964 100 55 0 71 0 1.356 80 265 130 179 0 100 232 0 304 0 1.471 80 266 1183 1280 0 100 568 0 1199 0 1.419 80 262 3994 5220 0
A#10010 0.288833838 100 54 0 45 0 1.232 80 298 293 458 0 110 253 0 112 0 1.255 80 342 2829 3207 0 100 575 0 362 0 1.236 80 305 9682 13065 0
A#10011 -0.479848068 100 55 0 45 0 1.402 80 292 128 130 0 100 238 0 112 0 1.379 80 293 1353 902 0 100 570 0 350 0 1.363 80 287 4467 3730 0
A#10012 -0.251602012 70 60 0 46 0 3.109 32 205 8 25 0 100 245 0 109 0 3.408 80 268 153 188 -50 80 660 0 351 0 2.845 52 222 348 923 0
A#10013 100 56 0 44 0 3.418 80 316 11 25 -50 100 234 0 105 0 2.596 80 275 122 166 -50 100 612 0 333 0 3.096 80 305 335 707 -50
A#10014 0.464562571 90 55 0 44 0 1.772 52 274 57 105 0 90 240 0 106 0 1.709 52 269 608 786 0 90 630 0 338 0 1.621 52 296 1609 3197 0

Total number of rows: 43200

Table truncated, full table size 5595 Kbytes.




Supplementary data files not provided

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