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Sample GSM13299 Query DataSets for GSM13299
Status Public on Feb 09, 2004
Title liver, 24h starved, chip 24
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_025
 
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#1 100 41 0 42 0 2.173 80 285 26 31 0 110 79 0 95 0 2.061 80 298 135 203 0 110 266 0 313 0 2.088 80 274 614 831 0
A#10 -1.300604316 110 42 0 42 0 1.853 80 279 37 49 0 110 85 0 92 0 1.918 80 287 187 286 0 110 307 0 311 0 1.784 80 280 932 1215 0
A#100 -0.095867009 90 45 0 44 0 2.72 52 268 6 17 -50 80 93 0 99 0 2.762 52 211 36 129 0 90 347 0 346 0 3.117 52 266 198 521 0
A#1000 90 51 0 51 0 3.185 52 233 11 17 -50 90 124 0 131 0 2.673 52 219 60 128 -50 90 484 0 473 0 2.743 52 221 186 408 -50
A#10000 -0.280317601 90 54 0 50 0 1.737 52 244 58 59 0 100 132 0 129 0 1.54 80 249 304 332 0 90 470 0 440 0 1.452 52 244 1595 1377 0
A#10001 90 54 0 50 0 2.294 52 268 19 26 -50 90 129 0 124 0 1.967 52 244 86 146 -50 90 489 0 428 0 2.607 52 244 477 599 -50
A#10002 0.071587128 100 55 0 53 0 1.527 80 278 69 80 0 100 135 0 136 0 1.472 80 280 409 503 0 100 546 0 463 0 1.426 80 268 1817 2035 0
A#10003 -0.267225756 100 53 0 53 0 1.483 80 266 74 70 0 100 153 0 146 0 1.519 80 293 355 401 0 100 590 0 552 0 1.537 80 317 1980 1633 0
A#10004 0.044948468 100 54 0 51 0 1.387 80 249 165 180 0 100 149 0 137 0 1.415 80 249 883 1010 0 100 513 0 501 0 1.457 80 265 3657 4248 0
A#10005 0.168627558 100 54 0 51 0 1.563 80 241 48 58 0 100 146 0 131 0 1.509 80 241 266 379 0 100 473 0 455 0 1.443 80 241 1222 1516 0
A#10006 -0.179263446 100 52 0 51 0 1.266 80 268 235 225 0 100 138 0 131 0 1.24 80 227 1262 1335 0 100 476 0 452 0 1.268 80 224 6016 5341 0
A#10007 0.087863013 100 52 0 52 0 1.185 80 302 222 255 0 100 131 0 135 0 1.261 80 248 1181 1449 0 100 486 0 442 0 1.245 80 240 5640 5795 0
A#10008 0.012681245 110 53 0 52 0 1.814 80 266 95 114 0 110 141 0 141 0 1.384 80 271 546 642 0 110 493 0 487 0 1.7 80 263 2417 2466 0
A#10009 90 55 0 52 0 2.482 52 245 18 29 -50 90 144 0 143 0 2.257 52 245 95 158 -50 90 518 0 510 0 2.262 52 245 400 678 -50
A#1001 0.293209534 100 48 0 48 0 1.658 80 276 70 94 0 100 113 0 121 0 1.489 80 264 310 567 0 100 453 0 413 0 1.45 80 253 1759 2372 0
A#10010 -0.256628457 100 53 0 50 0 1.284 80 325 191 181 0 100 122 0 129 0 1.316 80 322 1013 1006 0 100 469 0 427 0 1.265 80 325 4583 4111 0
A#10011 0.143722368 80 49 0 48 0 1.439 52 206 101 117 0 80 114 0 113 0 1.617 52 216 565 707 0 90 430 0 377 0 1.415 52 252 2454 2929 0
A#10012 70 50 0 47 0 2.564 32 186 30 34 0 60 111 0 108 0 2.401 32 145 193 232 0 60 399 0 356 0 1.917 32 149 738 955 0
A#10013 0.03329265 100 51 0 48 0 1.923 80 286 38 41 0 100 118 0 114 0 2.056 80 298 174 244 0 100 428 0 379 0 1.794 80 292 850 1050 0
A#10014 0.278028377 100 52 0 48 0 1.538 80 215 61 77 0 100 119 0 115 0 1.542 80 251 327 473 0 100 435 0 402 0 1.406 80 241 1477 1926 0

Total number of rows: 43200

Table truncated, full table size 5462 Kbytes.




Supplementary data files not provided

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