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Sample GSM13292 Query DataSets for GSM13292
Status Public on Feb 09, 2004
Title liver, 24h starved, chip 13
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_018
 
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 -0.127626643 100 47 0 44 0 1.841 80 305 119 105 0 100 118 0 117 0 1.683 80 291 577 615 0 100 361 0 338 0 1.784 80 291 2747 2060 0
A#10 -4.29021657 110 46 0 45 0 1.46 80 310 296 211 0 110 112 0 116 0 1.306 80 280 1524 1270 0 110 373 0 340 0 1.293 80 310 6675 4370 0
A#100 90 52 0 46 0 2.096 52 282 54 57 0 90 134 0 120 0 1.685 52 289 306 290 0 90 406 0 351 0 1.646 52 263 1255 1118 0
A#1000 90 59 0 53 0 3.632 52 220 -7 6 -50 90 155 0 156 0 4.369 52 233 -12 22 -50 90 538 0 439 0 4.469 52 216 8 196 -50
A#10000 100 70 0 62 0 1.398 80 213 225 172 0 100 223 0 202 0 1.343 80 217 1142 1043 0 100 866 0 630 0 1.322 80 216 5014 3483 0
A#10001 100 68 0 60 0 1.587 80 213 96 119 0 100 197 0 193 0 1.755 80 212 556 714 0 100 760 0 575 0 1.488 80 212 2188 2252 0
A#10002 0.196280387 100 71 0 59 0 1.342 80 212 258 278 0 100 198 0 196 0 1.303 80 217 1448 1657 0 100 813 0 561 0 1.325 80 231 5554 5347 0
A#10003 0.165069422 100 68 0 61 0 1.287 80 210 347 365 0 100 195 0 195 0 1.205 80 215 1871 2088 0 100 735 0 543 0 1.243 80 231 7556 6862 0
A#10004 0.289459828 100 71 0 61 0 1.198 80 213 1002 1120 0 100 225 0 202 0 1.187 80 218 5241 6409 0 100 753 0 573 0 1.177 80 228 21637 21356 0
A#10005 0.26737198 100 79 0 68 0 1.572 80 249 156 174 0 90 259 0 240 0 1.399 52 236 890 1063 0 110 880 0 721 0 1.447 80 257 3146 3355 0
A#10006 0.33616083 110 75 0 65 0 1.187 80 239 774 907 0 110 259 0 234 0 1.171 80 267 4202 5239 0 110 858 0 692 0 1.144 80 236 16840 17555 0
A#10007 0.091031113 100 72 0 62 0 1.17 80 216 698 702 0 100 229 0 205 0 1.181 80 214 3679 4093 0 100 782 0 625 0 1.148 80 218 14147 13386 0
A#10008 -0.163291266 110 70 0 62 0 1.202 80 233 477 418 0 110 224 0 206 0 1.197 80 228 2565 2372 0 110 715 0 580 0 1.263 80 234 9933 7832 0
A#10009 90 66 0 59 0 2.382 52 208 29 42 -50 90 212 0 187 0 2.716 52 208 124 236 -50 90 670 0 535 0 2.964 52 204 569 831 -50
A#1001 0.343989893 100 54 0 50 0 1.396 80 272 185 217 0 110 139 0 134 0 1.337 80 277 1056 1264 0 100 470 0 385 0 1.353 80 274 3940 4187 0
A#10010 -0.369296634 100 65 0 58 0 1.232 80 272 567 456 0 100 193 0 178 0 1.191 80 271 3063 2640 0 100 680 0 509 0 1.191 80 262 12844 8600 0
A#10011 0.083860328 100 65 0 57 0 1.306 80 260 256 260 0 100 199 0 175 0 1.308 80 242 1425 1500 0 100 641 0 472 0 1.263 80 250 5346 4922 0
A#10012 80 63 0 55 0 1.71 52 200 99 112 0 80 181 0 158 0 1.519 52 188 497 659 0 80 641 0 483 0 1.567 52 200 1858 2089 0
A#10013 100 66 0 56 0 1.339 80 242 225 222 0 100 188 0 165 0 1.283 80 253 1182 1246 0 100 742 0 485 0 1.262 80 259 4459 4055 0
A#10014 0.096222427 100 62 0 55 0 1.411 80 253 197 204 0 100 193 0 162 0 1.299 80 242 1099 1170 0 100 646 0 472 0 1.286 80 251 4245 3978 0

Total number of rows: 43200

Table truncated, full table size 5563 Kbytes.




Supplementary data files not provided

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