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Sample GSM13249 Query DataSets for GSM13249
Status Public on Feb 09, 2004
Title liver, 48h sugar, chip 12
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_017
 
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#1 100 93 0 40 0 3.898 80 402 -19 13 -50 100 431 0 100 0 4.768 80 462 -88 96 -50 100 3176 0 423 0 4.439 80 457 -733 579 -50
A#10 -0.09265478 100 56 0 37 0 1.238 80 369 192 244 0 100 182 0 73 0 1.342 80 377 1169 1710 0 100 1184 0 278 0 1.366 80 369 11005 9790 0
A#100 50 51 0 41 0 2.17 12 84 15 13 0 60 145 0 73 0 2.184 32 156 51 149 0 100 861 0 281 0 3.113 80 316 384 750 -50
A#1000 0.232288063 100 49 0 40 0 1.494 80 258 53 93 0 100 119 0 84 0 1.374 80 256 347 641 0 100 791 0 328 0 1.451 80 256 3039 3872 0
A#10000 0.335914995 100 51 0 39 0 1.643 80 255 56 114 0 100 156 0 85 0 1.647 80 255 348 824 0 100 923 0 324 0 1.533 80 267 3038 4598 0
A#10001 -0.005176491 90 52 0 39 0 1.796 52 233 48 67 0 90 157 0 83 0 1.67 52 233 240 426 0 90 908 0 324 0 1.453 52 234 2321 2541 0
A#10002 -0.052236926 100 54 0 39 0 1.846 80 278 58 91 0 100 160 0 83 0 1.449 80 272 374 613 0 100 880 0 316 0 1.4 80 270 3656 3543 0
A#10003 0.236548705 100 52 0 39 0 1.585 80 281 66 118 0 100 142 0 81 0 1.598 80 260 349 809 0 100 730 0 299 0 1.41 80 264 3608 4590 0
A#10004 -0.585577892 100 52 0 39 0 1.252 80 277 284 235 0 100 149 0 80 0 1.212 80 283 1691 1611 0 100 859 0 279 0 1.193 80 286 15370 9319 0
A#10005 -0.037870129 100 52 0 39 0 1.825 80 280 52 66 0 100 140 0 78 0 1.7 80 307 287 472 0 100 883 0 294 0 1.587 80 306 2492 2710 0
A#10006 0.454990846 100 52 0 40 0 1.285 80 247 201 447 0 100 140 0 77 0 1.323 80 269 1248 3155 0 100 786 0 306 0 1.231 80 247 11374 17832 0
A#10007 -0.329378646 100 54 0 40 0 1.26 80 220 195 204 0 100 154 0 77 0 1.231 80 263 1156 1382 0 100 833 0 298 0 1.239 80 211 10409 8136 0
A#10008 0.004306758 110 55 0 41 0 1.537 80 211 120 175 0 100 145 0 81 0 1.549 80 220 743 1212 0 110 892 0 298 0 1.456 80 198 6537 6734 0
A#10009 -0.032027779 90 53 0 40 0 2.319 52 227 21 39 0 90 138 0 83 0 2.387 52 200 136 288 0 90 886 0 310 0 2.111 52 211 1489 1716 0
A#1001 0.044693732 100 49 0 39 0 1.635 80 273 61 87 0 100 118 0 79 0 1.508 80 273 361 614 0 100 744 0 290 0 1.467 80 273 3180 3174 0
A#10010 0.228407055 100 52 0 40 0 1.308 80 289 149 281 0 100 139 0 81 0 1.344 80 293 966 1897 0 100 854 0 299 0 1.269 80 277 8184 10960 0
A#10011 0.014209269 100 50 0 39 0 1.54 80 273 71 101 0 100 139 0 79 0 1.502 80 316 404 728 0 100 758 0 294 0 1.383 80 295 3635 4041 0
A#10012 100 51 0 40 0 3.017 80 284 8 17 -50 80 146 0 81 0 3.309 52 258 35 117 0 100 739 0 323 0 3.215 80 339 279 705 -50
A#10013 0.12797302 90 52 0 40 0 3.597 52 257 10 33 0 90 144 0 75 0 2.709 52 269 53 233 0 90 742 0 289 0 2.283 52 257 546 1325 0
A#10014 0.039130405 90 51 0 40 0 1.599 52 269 56 78 0 90 132 0 77 0 1.429 52 284 291 528 0 90 705 0 287 0 1.493 52 284 2650 3131 0

Total number of rows: 43200

Table truncated, full table size 5507 Kbytes.




Supplementary data files not provided

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