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Sample GSM13270 Query DataSets for GSM13270
Status Public on Feb 09, 2004
Title liver, 48h starved, chip 21
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 48h 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 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 = mp7_032
 
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, 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 40 0 85 0 2.269 80 411 9 97 -50 100 81 0 392 0 2.308 80 411 70 646 -50 100 372 0 2533 0 2.335 80 396 458 4771 -50
A#10 -0.106139908 70 39 0 45 0 1.244 32 211 167 152 0 80 64 0 118 0 1.245 52 261 1035 973 0 80 265 0 643 0 1.28 52 261 6912 6588 0
A#100 -0.001344568 70 40 0 47 0 1.754 32 198 24 27 0 70 79 0 127 0 1.691 32 210 168 175 0 80 338 0 695 0 2.114 52 248 1117 1287 0
A#1000 0.259334127 100 41 0 47 0 1.484 80 309 64 77 0 100 83 0 127 0 1.387 80 269 450 537 0 100 386 0 683 0 1.352 80 290 2790 3570 0
A#10000 -0.221788206 100 68 0 65 0 1.286 80 279 111 100 0 110 260 0 261 0 1.299 80 248 755 675 0 110 1489 0 1564 0 1.292 80 255 5228 4420 0
A#10001 0.298347861 100 66 0 66 0 1.276 80 226 109 128 0 100 254 0 267 0 1.249 80 222 691 894 0 100 1502 0 1615 0 1.276 80 243 4758 5717 0
A#10002 0.277797677 100 77 0 75 0 1.189 80 235 202 253 0 110 294 0 312 0 1.206 80 220 1433 1734 0 100 1823 0 1949 0 1.169 80 231 9969 11686 0
A#10003 -0.052804314 100 82 0 89 0 1.282 80 240 146 138 0 100 360 0 405 0 1.324 80 246 999 961 0 100 2237 0 2565 0 1.294 80 237 6199 6314 0
A#10004 -0.074881742 110 82 0 88 0 1.099 80 271 605 574 0 110 379 0 421 0 1.111 80 310 4000 3953 0 120 2417 0 2687 0 1.301 120 307 25183 24355 0
A#10005 0.381927593 110 79 0 81 0 1.273 80 218 120 153 0 110 347 0 396 0 1.357 80 221 819 971 0 110 2222 0 2357 0 1.357 80 222 5387 6632 0
A#10006 -0.026642135 110 73 0 78 0 1.201 80 222 432 431 0 120 284 0 340 0 1.311 120 174 2825 2818 0 110 1877 0 2134 0 1.178 80 210 18824 19211 0
A#10007 -0.094763145 110 72 0 77 0 1.149 80 216 509 477 0 110 274 0 331 0 1.131 80 202 3352 3214 0 110 1774 0 2052 0 1.134 80 234 23334 22666 0
A#10008 0.334874766 110 74 0 77 0 1.194 80 262 261 313 0 110 285 0 340 0 1.183 80 223 1642 2158 0 110 1844 0 1994 0 1.148 80 247 11356 14749 0
A#10009 50 74 0 78 0 2.227 12 99 33 35 0 100 276 0 322 0 3.49 80 222 130 118 -50 100 1713 0 1991 0 2.884 80 216 708 892 -50
A#1001 0.339188819 100 40 0 46 0 1.584 80 299 74 92 0 100 81 0 125 0 1.531 80 294 502 659 0 100 340 0 647 0 1.549 80 294 3410 4185 0
A#10010 -0.296740932 120 70 0 70 0 1.314 120 313 278 240 0 110 247 0 284 0 1.18 80 268 1979 1654 0 120 1451 0 1702 0 1.427 120 261 12634 10539 0
A#10011 -0.184352883 100 62 0 64 0 1.27 80 245 140 124 0 100 227 0 251 0 1.282 80 281 907 862 0 100 1339 0 1484 0 1.314 80 287 6751 5708 0
A#10012 0.278339534 100 59 0 61 0 1.384 80 220 73 87 0 100 195 0 219 0 1.445 80 219 484 627 0 100 1078 0 1320 0 1.375 80 234 3416 3959 0
A#10013 100 63 0 67 0 2.586 80 218 22 31 -50 100 212 0 245 0 1.94 80 204 174 234 -50 100 1338 0 1534 0 2.236 80 224 1113 1366 -50
A#10014 0.912438351 90 71 0 72 0 1.358 52 222 86 91 0 90 266 0 294 0 1.345 52 252 580 586 0 80 1845 0 1850 0 1.505 52 207 3268 4169 0

Total number of rows: 43200

Table truncated, full table size 5739 Kbytes.




Supplementary data files not provided

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