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Sample GSM13254 Query DataSets for GSM13254
Status Public on Feb 09, 2004
Title liver, 48h starved, chip 5
Sample type RNA
 
Channel 1
Source name pool3, starved
Organism Mus musculus
Extracted molecule total RNA
 
Channel 2
Source name pool3, normal
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 = 4 animals (No. N7, N8, N9 and N10) fed during and before the 48h experiment with standard food, ad libitum; pool3 starved = 4 animals (No. St7, St8, St9 and St10) fed before the experiment with standard food, ad libitum, starved during the 48h 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 = mp6_031
 
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)
GSE852 liver, 48h starved
GSE858 Mouse feeding experiment

Data table header descriptions
ID_REF
VALUE log2 ratio, loess normalized
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 0.458303417 110 47 0 43 0 1.593 80 450 100 66 0 110 136 0 115 0 1.458 80 451 708 447 0 110 685 0 540 0 1.577 80 464 4223 2435 0
A#10 -0.260025556 100 61 0 56 0 1.184 80 404 278 315 0 100 247 0 189 0 1.19 80 392 1974 2185 0 100 1181 0 930 0 1.218 80 381 12408 12692 0
A#100 0.377461649 90 69 0 62 0 1.491 52 233 79 49 0 80 288 0 255 0 1.385 52 199 554 372 0 90 1637 0 1322 0 1.536 52 233 3466 1989 0
A#1000 0.70845671 110 58 0 49 0 1.302 80 242 146 84 0 110 201 0 152 0 1.33 80 235 1061 610 0 110 1011 0 730 0 1.313 80 248 6195 3279 0
A#10000 -0.437708413 110 82 0 77 0 1.352 80 248 120 148 0 110 376 0 344 0 1.291 80 228 779 1032 0 110 2041 0 1778 0 1.272 80 220 5292 5823 0
A#10001 0.304493125 110 81 0 76 0 1.342 80 277 124 93 0 100 363 0 320 0 1.286 80 253 828 705 0 110 1993 0 1696 0 1.376 80 270 5378 3835 0
A#10002 0.290101095 110 75 0 70 0 1.217 80 270 235 196 0 110 311 0 295 0 1.236 80 270 1590 1342 0 110 1762 0 1522 0 1.219 80 281 10008 7525 0
A#10003 -0.240509166 110 71 0 66 0 1.199 80 308 306 338 0 110 287 0 267 0 1.185 80 308 2044 2454 0 110 1583 0 1356 0 1.159 80 306 13169 13691 0
A#10004 -0.085424692 110 68 0 64 0 1.107 80 286 798 815 0 110 257 0 251 0 1.112 80 287 5452 5860 0 110 1388 0 1260 0 1.096 80 289 34424 32512 0
A#10005 0.245881426 100 64 0 61 0 1.253 80 276 193 157 0 100 237 0 228 0 1.221 80 276 1285 1139 0 100 1224 0 1177 0 1.195 80 275 7915 6133 0
A#10006 0.057129038 100 62 0 61 0 1.139 80 231 653 603 0 100 221 0 227 0 1.137 80 231 4244 4212 0 100 1213 0 1139 0 1.122 80 232 26598 23354 0
A#10007 0.003981201 120 62 0 61 0 1.279 120 187 467 443 0 120 227 0 233 0 1.259 120 197 3109 3176 0 120 1243 0 1166 0 1.304 120 197 19125 17511 0
A#10008 -0.135231326 110 63 0 62 0 1.22 80 199 332 346 0 110 230 0 233 0 1.222 80 199 2212 2440 0 110 1273 0 1196 0 1.201 80 191 13473 13362 0
A#10009 0.184810233 100 62 0 63 0 1.37 80 235 98 76 0 100 228 0 231 0 1.362 80 235 641 568 0 100 1237 0 1175 0 1.399 80 219 3924 2972 0
A#1001 0.4831672 100 55 0 48 0 1.205 80 262 271 179 0 100 179 0 145 0 1.238 80 250 1783 1261 0 100 917 0 652 0 1.2 80 250 10552 7024 0
A#10010 -0.583313709 110 65 0 64 0 1.156 80 292 379 517 0 110 237 0 247 0 1.16 80 292 2590 3682 0 110 1267 0 1272 0 1.171 80 288 16019 20819 0
A#10011 -2.06243034 110 66 0 66 0 1.19 80 324 221 253 0 110 237 0 256 0 1.237 80 324 1492 1839 0 110 1296 0 1352 0 1.206 80 317 9370 10079 0
A#10012 0.325149334 90 67 0 67 0 1.784 52 252 61 43 0 90 255 0 263 0 1.678 52 252 404 326 0 100 1413 0 1420 0 1.586 80 263 2295 1781 0
A#10013 90 72 0 71 0 1.411 52 296 188 184 0 90 285 0 298 0 1.38 52 284 1202 1256 0 130 1558 0 1539 0 1.732 120 299 6401 5754 0
A#10014 90 70 0 70 0 1.328 52 257 113 112 0 100 295 0 289 0 1.399 80 278 744 752 0 100 1505 0 1460 0 1.365 80 231 4507 4174 0

Total number of rows: 43200

Table truncated, full table size 5718 Kbytes.




Supplementary data files not provided

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