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Sample GSM13289 Query DataSets for GSM13289
Status Public on Feb 09, 2004
Title liver, 24h starved, chip 20
Sample type RNA
 
Channel 1
Source name pool3, normal
Organism Mus musculus
Extracted molecule total RNA
 
Channel 2
Source name pool3, 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. Pool3 normal = 6 animals (No. N1, N2, N3, N4, N5 and N6) fed during and before the 24h experiment with standard food, ad libitum; pool3 starved = 6 animals (No. St1, St2, St3, 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_015
 
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 0.01157278 100 45 0 43 0 1.978 80 315 81 86 0 100 99 0 86 0 1.741 80 334 251 374 0 100 454 0 376 0 1.618 80 349 2010 2234 0
A#10 -0.283108963 110 51 0 48 0 1.343 80 328 245 222 0 110 118 0 100 0 1.428 80 349 950 973 0 110 599 0 455 0 1.398 80 348 6418 5531 0
A#100 90 53 0 48 0 2.108 52 263 22 41 -50 70 125 0 103 0 2.85 32 194 72 190 0 70 626 0 517 0 2.237 32 195 502 1256 0
A#1000 90 60 0 56 0 3.008 52 238 20 20 -50 90 147 0 136 0 4.114 52 228 40 68 -50 100 707 0 600 0 3.299 80 255 421 357 -50
A#10000 -0.288064094 110 67 0 57 0 1.396 80 243 210 191 0 110 170 0 138 0 1.334 80 230 831 794 0 110 850 0 681 0 1.382 80 250 5453 4771 0
A#10001 0.323709609 100 68 0 59 0 1.508 80 242 123 159 0 90 181 0 137 0 1.473 52 216 495 711 0 90 885 0 656 0 1.566 52 220 3434 3906 0
A#10002 0.282259847 100 66 0 59 0 1.291 80 218 268 311 0 100 184 0 150 0 1.346 80 247 998 1334 0 100 939 0 697 0 1.293 80 247 6786 7561 0
A#10003 0.168950161 100 63 0 58 0 1.292 80 214 315 343 0 100 167 0 139 0 1.26 80 223 1235 1497 0 100 834 0 663 0 1.264 80 228 8085 8575 0
A#10004 0.313639178 100 63 0 57 0 1.152 80 230 919 1110 0 100 165 0 134 0 1.153 80 226 3769 4743 0 100 833 0 645 0 1.129 80 225 24855 27249 0
A#10005 0.561577755 100 61 0 56 0 1.388 80 218 165 226 0 100 156 0 132 0 1.391 80 222 609 945 0 100 809 0 644 0 1.423 80 217 4131 5448 0
A#10006 -0.174383667 110 62 0 56 0 1.304 80 236 980 901 0 110 158 0 132 0 1.341 80 242 3778 3804 0 110 852 0 638 0 1.357 80 242 24985 21713 0
A#10007 0.233318999 110 65 0 56 0 1.224 80 242 690 826 0 110 161 0 132 0 1.214 80 242 2856 3499 0 110 864 0 618 0 1.197 80 242 18950 19741 0
A#10008 0.143431655 100 65 0 57 0 1.26 80 239 395 456 0 100 167 0 135 0 1.241 80 240 1691 1937 0 110 828 0 652 0 1.25 80 229 10164 10764 0
A#10009 0.296113569 100 66 0 59 0 1.735 80 261 87 115 0 90 168 0 141 0 1.602 52 232 360 503 0 100 835 0 671 0 1.543 80 214 2349 2820 0
A#1001 0.443759636 100 57 0 56 0 1.242 80 242 260 354 0 110 142 0 136 0 1.337 80 252 961 1504 0 100 703 0 626 0 1.257 80 228 7092 8694 0
A#10010 -0.293626871 100 65 0 56 0 1.193 80 243 587 527 0 100 172 0 135 0 1.224 80 273 2330 2264 0 100 833 0 621 0 1.193 80 232 15309 12747 0
A#10011 -0.179911002 100 63 0 55 0 1.465 80 250 159 146 0 100 158 0 123 0 1.44 80 258 624 646 0 100 786 0 591 0 1.411 80 249 3487 3605 0
A#10012 0.010455213 90 60 0 54 0 1.801 52 221 82 97 0 90 144 0 121 0 1.611 52 245 365 409 0 90 773 0 558 0 1.837 52 233 2155 2359 0
A#10013 -0.074871121 100 61 0 55 0 1.52 80 265 176 175 0 100 143 0 125 0 1.4 80 273 683 763 0 100 789 0 563 0 1.427 80 245 4275 4350 0
A#10014 0.261309108 100 63 0 54 0 1.413 80 247 154 188 0 100 148 0 121 0 1.432 80 240 591 823 0 100 791 0 583 0 1.49 80 220 4107 4540 0

Total number of rows: 43200

Table truncated, full table size 5658 Kbytes.




Supplementary data files not provided

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