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Sample GSM13248 Query DataSets for GSM13248
Status Public on Feb 09, 2004
Title liver, 48h sugar, chip 11
Sample type RNA
 
Channel 1
Source name pool3, normal
Organism Mus musculus
Extracted molecule total RNA
 
Channel 2
Source name pool3, sugar
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 sugar = 4 animals (No. Su7, Su8, Su9 and Su10) fed before the experiment with standard food, ad libitum, during the 48h experiment with 50% (w/v) sugar solution (40% glucose, 10% sucrose).
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 = mp8_016
 
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)
GSE851 liver, 48h sugar
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 70 97 0 48 0 2.517 32 212 50 64 0 50 476 0 193 0 2.827 12 104 333 480 0 60 1465 0 710 0 2.481 32 160 1267 2731 0
A#10 -0.179252178 90 65 0 42 0 1.293 52 324 503 373 0 100 217 0 102 0 1.443 80 361 2652 2550 0 100 647 0 439 0 1.363 80 370 11225 14136 0
A#100 -0.067578537 90 70 0 43 0 2.141 52 282 60 49 0 80 255 0 106 0 2.693 52 250 302 395 0 80 741 0 470 0 2.056 52 222 1340 2206 0
A#1000 0.006237386 100 80 0 48 0 1.62 80 290 172 139 0 90 331 0 148 0 1.492 52 280 901 1140 0 100 1055 0 614 0 1.489 80 287 4156 5623 0
A#10000 0.466194125 100 64 0 44 0 1.359 80 257 186 249 0 100 202 0 120 0 1.414 80 246 1092 1777 0 100 748 0 512 0 1.342 80 246 4573 9915 0
A#10001 0.19931545 90 66 0 45 0 1.394 52 244 121 148 0 100 220 0 119 0 1.549 80 234 728 1024 0 100 748 0 512 0 1.557 80 251 2957 5594 0
A#10002 -0.197633772 90 66 0 46 0 1.259 52 245 322 274 0 100 220 0 119 0 1.319 80 238 1854 2010 0 90 752 0 541 0 1.26 52 233 7761 11117 0
A#10003 0.305094535 90 66 0 47 0 1.269 52 280 311 339 0 90 225 0 125 0 1.325 52 244 1617 2435 0 90 790 0 552 0 1.222 52 280 6623 13520 0
A#10004 0.34395791 100 66 0 45 0 1.176 80 272 1231 1409 0 100 231 0 125 0 1.16 80 264 6999 9960 0 100 735 0 514 0 1.157 80 267 28630 55599 0
A#10005 0.246742602 100 68 0 45 0 1.432 80 279 183 214 0 100 222 0 116 0 1.448 80 279 1021 1520 0 100 672 0 513 0 1.375 80 265 4311 8400 0
A#10006 0.440808079 100 67 0 45 0 1.209 80 238 1001 1235 0 100 229 0 114 0 1.213 80 247 5780 8773 0 100 654 0 495 0 1.174 80 233 24071 48678 0
A#10007 0.406780009 110 68 0 46 0 1.209 80 225 712 842 0 110 227 0 117 0 1.34 80 251 4108 6042 0 100 672 0 514 0 1.186 80 218 16264 33878 0
A#10008 0.132745463 100 67 0 47 0 1.292 80 246 441 476 0 100 228 0 122 0 1.312 80 254 2711 3406 0 100 662 0 541 0 1.187 80 246 10938 18970 0
A#10009 0.008087871 80 65 0 47 0 1.729 52 222 75 75 0 80 227 0 125 0 2.059 52 222 458 509 0 80 692 0 524 0 1.783 52 210 1410 2834 0
A#1001 -0.111101293 90 69 0 44 0 1.325 52 245 247 198 0 90 258 0 121 0 1.353 52 267 1363 1389 0 90 891 0 494 0 1.303 52 245 5950 7852 0
A#10010 0.132525398 100 64 0 46 0 1.239 80 302 956 983 0 100 213 0 120 0 1.235 80 323 5304 6898 0 100 683 0 515 0 1.176 80 310 23437 37662 0
A#10011 -0.308964424 100 64 0 45 0 1.371 80 271 403 327 0 100 206 0 119 0 1.269 80 276 2319 2326 0 100 637 0 537 0 1.281 80 291 9406 12570 0
A#10012 0.094270489 90 64 0 46 0 3.091 52 260 36 37 0 100 201 0 121 0 3.153 80 292 100 238 -50 100 659 0 520 0 2.578 80 277 658 1498 0
A#10013 0.159266545 90 63 0 45 0 1.992 52 254 66 79 0 90 197 0 113 0 2.119 52 240 413 599 0 90 666 0 494 0 1.727 52 220 1911 3248 0
A#10014 -0.011754229 100 61 0 45 0 1.374 80 300 206 210 0 100 191 0 111 0 1.421 80 304 1201 1483 0 100 656 0 498 0 1.398 80 302 4810 7839 0

Total number of rows: 43200

Table truncated, full table size 5659 Kbytes.




Supplementary data files not provided
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