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Sample GSM13197 Query DataSets for GSM13197
Status Public on Feb 09, 2004
Title liver, 48h sugar, chip 2
Sample type RNA
 
Channel 1
Source name pool2 normal
Organism Mus musculus
Extracted molecule total RNA
 
Channel 2
Source name pool2, 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. Pool2 normal = 3 animals (No. N4, N5 and N6) fed during and before the 48h experiment with standard food, ad libitum; pool2 sugar = 3 animals (No. Su4, Su5 and Su6) 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 = mp7_056
 
Submission date Dec 03, 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 forground 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 88 0 233 0 3.494 80 372 24 47 -50 100 421 0 1483 0 2.749 80 380 163 356 -50 100 2830 0 8742 0 3.073 80 405 727 1364 -50
A#10 100 78 0 160 0 2.213 80 330 31 63 -50 60 366 0 1012 0 1.596 32 137 370 571 0 50 2667 0 6337 0 2.295 12 72 2479 4011 0
A#100 100 83 0 230 0 2.798 80 280 23 78 -50 100 369 0 1460 0 2.916 80 321 155 539 -50 100 2462 0 8103 0 3.264 80 302 688 3124 -50
A#1000 90 60 0 51 0 1.774 52 256 29 45 0 90 225 0 167 0 2.53 52 205 140 294 0 80 1315 0 802 0 2.559 52 235 1157 1668 0
A#10000 0.101059913 110 53 0 48 0 1.286 80 262 117 185 0 110 156 0 145 0 1.28 80 267 822 1297 0 110 892 0 718 0 1.317 80 275 5736 7146 0
A#10001 0.323667449 100 51 0 48 0 1.808 80 262 26 61 0 110 153 0 144 0 2.073 80 270 180 412 0 110 779 0 684 0 1.606 80 256 1140 2322 0
A#10002 -0.051477796 100 53 0 50 0 1.352 80 264 84 122 0 110 156 0 149 0 1.367 80 270 576 861 0 100 811 0 699 0 1.412 80 257 3996 4690 0
A#10003 -0.100493776 90 53 0 50 0 1.404 52 223 60 86 0 90 153 0 148 0 1.538 52 217 389 603 0 90 816 0 692 0 1.535 52 212 2967 3634 0
A#10004 0.08252315 120 53 0 50 0 1.252 120 218 185 263 0 110 165 0 155 0 1.219 80 226 1232 1894 0 120 828 0 710 0 1.48 120 247 8866 10604 0
A#10005 0.122710374 110 54 0 50 0 2.744 80 249 15 49 0 110 168 0 155 0 2.051 80 243 109 352 0 110 815 0 730 0 2.167 80 249 821 1955 0
A#10006 0.166831667 100 55 0 51 0 1.179 80 260 298 427 0 110 158 0 153 0 1.168 80 246 2022 2924 0 110 765 0 695 0 1.151 80 236 14001 17397 0
A#10007 0.105923874 110 54 0 51 0 1.187 80 237 284 386 0 100 148 0 153 0 1.152 80 204 1862 2702 0 100 792 0 690 0 1.148 80 206 13075 15638 0
A#10008 -0.156239913 100 51 0 50 0 1.236 80 240 147 184 0 100 148 0 142 0 1.204 80 227 979 1326 0 100 792 0 661 0 1.262 80 232 6145 7281 0
A#10009 0.117058021 80 51 0 49 0 1.554 52 230 55 83 0 80 148 0 143 0 1.464 52 231 370 641 0 80 756 0 649 0 1.408 52 231 2378 3453 0
A#1001 100 64 0 52 0 2.877 80 238 19 41 -50 100 239 0 175 0 2.433 80 203 103 272 -50 100 1453 0 853 0 2.708 80 294 654 1643 -50
A#10010 -0.04894654 90 52 0 48 0 1.13 52 257 446 533 0 90 150 0 138 0 1.109 52 257 2948 3892 0 90 815 0 645 0 1.126 52 257 20784 21922 0
A#10011 -0.206288726 80 51 0 48 0 1.2 52 241 175 214 0 80 134 0 132 0 1.218 52 250 1148 1521 0 80 728 0 620 0 1.205 52 250 7995 8521 0
A#10012 -0.078727958 100 50 0 47 0 2.113 80 294 21 43 0 90 133 0 131 0 1.976 52 256 159 327 0 90 662 0 599 0 1.839 52 267 1174 1943 0
A#10013 -0.085664293 90 49 0 46 0 1.672 52 251 45 73 0 90 124 0 128 0 1.501 52 263 352 533 0 90 640 0 564 0 1.619 52 257 2370 2959 0
A#10014 0.288084439 90 48 0 47 0 1.252 52 266 152 238 0 90 123 0 129 0 1.21 52 266 970 1677 0 90 638 0 576 0 1.25 52 269 6639 9184 0

Total number of rows: 43200

Table truncated, full table size 5623 Kbytes.




Supplementary data files not provided

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