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Sample GSM13290 Query DataSets for GSM13290
Status Public on Feb 09, 2004
Title liver, 24h starved, chip 11
Sample type RNA
 
Channel 1
Source name pool2, normal
Organism Mus musculus
Extracted molecule total RNA
 
Channel 2
Source name pool2, 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. Pool2 normal = 3 animals (No. N4, N5 and N6) fed during and before the 24h experiment with standard food, ad libitum; pool2 starved = 3 animals (No. St4, St5 and St6) fed before the experiment with standard food, ad libitum, starved during the 24h 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 = mp4_016
 
Submission date Dec 05, 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)
GSE853 liver, 24h 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 -0.54817572 100 43 0 45 0 1.697 80 321 89 83 0 100 109 0 92 0 1.985 80 320 371 316 0 100 439 0 444 0 1.453 80 311 2698 2083 0
A#10 -0.266430636 110 45 0 45 0 1.49 80 305 105 111 0 110 111 0 87 0 1.73 80 284 440 447 0 110 440 0 402 0 1.439 80 293 3366 2944 0
A#100 90 64 0 63 0 2.764 52 256 52 68 -50 90 199 0 175 0 2.179 52 270 171 240 -50 90 1042 0 930 0 2.014 52 258 1342 1529 -50
A#1000 90 55 0 59 0 3.568 52 232 -5 -1 -50 90 164 0 143 0 5.108 52 232 -10 5 -50 90 761 0 720 0 5.701 52 221 -54 41 -50
A#10000 100 59 0 62 0 1.437 80 243 165 179 0 100 197 0 155 0 1.409 80 257 724 765 0 100 860 0 822 0 1.37 80 254 4948 4451 0
A#10001 100 58 0 58 0 1.817 80 240 80 113 0 100 188 0 148 0 1.92 80 240 350 448 0 100 858 0 766 0 1.778 80 226 2000 2832 0
A#10002 0.277104694 110 61 0 58 0 1.413 80 223 194 266 0 110 190 0 156 0 1.443 80 223 948 1142 0 110 920 0 807 0 1.294 80 208 5414 6682 0
A#10003 0.251807518 100 58 0 60 0 1.312 80 230 289 394 0 100 194 0 154 0 1.414 80 231 1247 1681 0 110 820 0 800 0 1.255 80 224 9123 10014 0
A#10004 0.230418559 110 59 0 61 0 1.273 80 247 593 798 0 110 192 0 160 0 1.326 80 233 2970 3292 0 110 827 0 792 0 1.259 80 254 16684 19793 0
A#10005 0.28891629 100 59 0 59 0 1.437 80 237 154 209 0 100 187 0 164 0 1.57 80 240 634 845 0 100 837 0 792 0 1.425 80 236 4152 5043 0
A#10006 0.298854642 100 61 0 63 0 1.317 80 242 342 478 0 100 207 0 166 0 1.381 80 256 1538 1902 0 110 898 0 851 0 1.307 80 235 9725 11655 0
A#10007 0.328809608 100 63 0 63 0 1.17 80 237 522 736 0 100 207 0 168 0 1.193 80 242 2426 3073 0 100 886 0 871 0 1.169 80 237 15199 18361 0
A#10008 -0.109619362 110 68 0 65 0 1.265 80 279 384 419 0 110 199 0 167 0 1.247 80 260 1762 1806 0 110 919 0 836 0 1.207 80 260 11091 10644 0
A#10009 70 71 0 67 0 3.102 32 171 47 76 0 80 201 0 165 0 1.693 52 181 210 310 0 80 879 0 821 0 1.864 52 189 1742 1902 0
A#1001 0.2571606 100 52 0 56 0 1.381 80 252 184 248 0 100 140 0 140 0 1.461 80 265 624 1007 0 110 668 0 685 0 1.375 80 255 5295 6389 0
A#10010 -0.138492679 100 60 0 60 0 1.243 80 300 438 486 0 100 184 0 159 0 1.348 80 271 1900 2007 0 100 852 0 803 0 1.189 80 268 13391 11956 0
A#10011 -0.136308261 100 64 0 62 0 1.53 80 274 182 199 0 100 179 0 161 0 1.467 80 288 868 856 0 100 939 0 828 0 1.439 80 283 4929 4974 0
A#10012 90 67 0 65 0 1.748 52 218 60 101 0 80 221 0 170 0 2.038 52 186 279 375 0 90 1023 0 881 0 1.708 52 211 2081 2402 0
A#10013 100 67 0 65 0 2.084 80 224 63 97 0 100 243 0 171 0 2.536 80 227 231 408 0 100 953 0 842 0 1.968 80 210 1930 2471 0
A#10014 -0.020019173 100 65 0 66 0 1.536 80 238 121 140 0 100 232 0 175 0 1.681 80 257 503 601 0 100 947 0 929 0 1.463 80 246 3201 3542 0

Total number of rows: 43200

Table truncated, full table size 5595 Kbytes.




Supplementary data files not provided

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