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Sample GSM13246 Query DataSets for GSM13246
Status Public on Feb 09, 2004
Title liver, 48h sugar, chip 9
Sample type RNA
 
Channel 1
Source name pool3, sugar
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 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.
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
Keywords = nutrient response
Keywords = starvation
Keywords = liver
Keywords = anti-aging
Keywords = longevity
Lot batch = mp8_014
 
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
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 75 0 43 0 3.669 80 413 40 56 -50 80 278 0 100 0 3.819 52 254 163 442 0 80 876 0 258 0 3.026 52 245 1070 1377 0
A#10 -0.313430968 100 65 0 42 0 1.361 80 366 314 416 0 100 210 0 95 0 1.386 80 369 1484 2853 0 100 640 0 252 0 1.391 80 369 6557 9614 0
A#100 -0.223557444 90 71 0 44 0 1.951 52 256 74 88 0 80 217 0 106 0 2.49 52 210 342 624 0 90 716 0 308 0 1.773 52 241 1403 2201 0
A#1000 0.303720213 100 71 0 54 0 2.19 80 272 104 102 0 100 220 0 171 0 1.863 80 307 475 683 0 100 697 0 515 0 1.794 80 275 2025 2295 0
A#10000 -0.02438838 90 76 0 52 0 1.479 52 253 187 231 0 90 253 0 156 0 1.581 52 233 899 1622 0 100 786 0 442 0 1.408 80 233 3874 5373 0
A#10001 -0.267614416 90 76 0 52 0 1.762 52 232 108 148 0 100 241 0 146 0 2.011 80 252 475 970 0 100 750 0 419 0 1.732 80 222 1852 3182 0
A#10002 0.180452741 110 75 0 51 0 1.423 80 277 250 258 0 110 245 0 144 0 1.493 80 261 1218 1827 0 110 698 0 397 0 1.399 80 257 4751 6050 0
A#10003 -0.393621691 90 73 0 50 0 1.755 52 257 99 160 0 100 256 0 145 0 1.869 80 265 450 1052 0 90 734 0 382 0 1.573 52 257 2303 3658 0
A#10004 0.041229668 110 71 0 49 0 1.265 80 299 919 1006 0 110 242 0 137 0 1.261 80 268 4878 7150 0 110 740 0 367 0 1.228 80 299 18341 23426 0
A#10005 -0.213721341 100 71 0 48 0 1.65 80 262 126 173 0 100 223 0 130 0 1.826 80 253 624 1219 0 100 736 0 350 0 1.468 80 248 2597 4000 0
A#10006 0.243885162 110 72 0 49 0 1.278 80 242 902 888 0 110 234 0 133 0 1.251 80 241 4788 6372 0 110 707 0 358 0 1.183 80 245 18371 20093 0
A#10007 -0.078211712 110 71 0 50 0 1.229 80 242 671 779 0 110 234 0 137 0 1.262 80 242 3331 5345 0 110 615 0 362 0 1.25 80 256 12860 17461 0
A#10008 0.178412361 100 73 0 50 0 1.314 80 270 300 326 0 100 230 0 136 0 1.434 80 247 1574 2234 0 100 702 0 365 0 1.315 80 270 5943 7284 0
A#10009 -0.678358627 70 80 0 52 0 1.683 32 201 72 111 0 80 246 0 142 0 1.955 52 220 366 673 0 70 831 0 456 0 1.911 32 213 1326 2282 0
A#1001 -0.239773787 100 66 0 51 0 2.405 80 263 62 84 0 90 220 0 155 0 2.239 52 245 328 577 0 100 629 0 465 0 1.926 80 279 1267 1772 0
A#10010 -0.537384857 100 76 0 52 0 1.193 80 285 566 882 0 100 247 0 145 0 1.278 80 299 2874 6154 0 100 731 0 421 0 1.189 80 302 11559 20169 0
A#10011 -0.256620694 100 73 0 51 0 1.431 80 291 196 290 0 100 238 0 149 0 1.484 80 304 1111 2025 0 100 704 0 417 0 1.374 80 308 4053 6738 0
A#10012 0.013906167 90 76 0 51 0 2.336 52 246 37 82 0 90 234 0 149 0 2.674 52 258 194 522 0 80 669 0 420 0 2.169 52 210 1187 1782 0
A#10013 -0.226184276 100 75 0 51 0 1.676 80 257 103 140 0 100 268 0 148 0 1.91 80 288 445 986 0 100 664 0 403 0 1.786 80 257 2118 3222 0
A#10014 -0.249504942 100 74 0 51 0 1.62 80 260 141 203 0 100 266 0 142 0 1.648 80 255 740 1385 0 100 696 0 389 0 1.387 80 252 2983 4812 0

Total number of rows: 43200

Table truncated, full table size 5616 Kbytes.




Supplementary data files not provided
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