NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM13198 Query DataSets for GSM13198
Status Public on Feb 09, 2004
Title liver, 48h sugar, chip 3
Sample type RNA
 
Channel 1
Source name pool2 normal
Organism Mus musculus
Extracted molecule total RNA
 
Channel 2
Source name pool2, 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. Pool2 normal = 3 animals (No. N4, N5 and N6) fed during and before the 48h experiment with standard food, ad libitum; pool2 sugar = 3 animals (No. Su4, Su5 and Su6) 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 = mp7_058
 
Submission date Dec 03, 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 2.378290907 90 67 0 199 0 1.65 52 316 36 213 0 90 354 0 1179 0 1.767 52 328 390 1468 0 100 1690 0 6772 0 2.174 80 402 1786 8504 0
A#10 100 59 0 201 0 3.164 80 301 35 48 -50 100 262 0 1191 0 3.557 80 333 366 315 -50 100 1158 0 6587 0 2.9 80 330 1699 2703 -50
A#100 100 49 0 56 0 2.778 80 287 8 37 -50 100 160 0 186 0 3.234 80 273 103 243 -50 100 679 0 775 0 2.394 80 299 267 1694 -50
A#1000 -0.366299237 100 43 0 42 0 2.073 80 331 39 56 0 100 108 0 97 0 2.046 80 312 312 368 0 100 368 0 405 0 2.125 80 312 1943 2185 0
A#10000 0.287437925 110 73 0 66 0 1.529 80 268 85 152 0 110 377 0 252 0 1.379 80 250 704 1047 0 110 1682 0 1290 0 1.326 80 258 3985 6066 0
A#10001 -0.005516132 100 73 0 66 0 1.329 80 225 109 182 0 100 356 0 251 0 1.292 80 233 1087 1294 0 100 1702 0 1325 0 1.251 80 246 5430 7082 0
A#10002 -0.102082135 100 77 0 73 0 1.535 80 222 91 145 0 100 385 0 293 0 1.353 80 228 907 1008 0 90 1791 0 1696 0 1.5 52 210 4470 5699 0
A#10003 0.104725328 90 78 0 78 0 1.452 52 227 66 117 0 90 406 0 324 0 1.456 52 181 650 853 0 90 1801 0 1724 0 1.388 52 206 3454 4716 0
A#10004 0.158565704 120 81 0 72 0 1.353 120 333 365 577 0 120 424 0 278 0 1.216 120 244 3491 4085 0 120 1931 0 1517 0 1.279 120 308 16922 22229 0
A#10005 100 114 0 84 0 1.527 80 308 69 181 -50 100 736 0 391 0 1.98 80 321 665 1269 -50 100 3455 0 1972 0 1.652 80 308 3295 6999 -50
A#10006 60 215 0 288 0 1.365 32 159 417 704 0 60 1780 0 1767 0 1.58 32 159 3790 4931 0 60 7707 0 8715 0 1.345 32 149 20395 27247 0
A#10007 1.811067784 100 86 0 73 0 1.331 80 270 128 241 0 100 501 0 309 0 1.313 80 254 1249 1703 0 100 2354 0 1656 0 1.27 80 248 6083 9342 0
A#10008 0.090366073 100 68 0 64 0 1.28 80 223 107 177 0 100 331 0 241 0 1.306 80 204 983 1268 0 100 1456 0 1203 0 1.279 80 206 4888 6812 0
A#10009 100 62 0 60 0 3.166 80 258 21 33 -50 100 282 0 217 0 2.793 80 224 189 214 -50 100 1203 0 1026 0 3.079 80 246 773 1354 -50
A#1001 -0.046621556 100 44 0 42 0 2.024 80 316 30 55 0 100 107 0 92 0 1.885 80 315 299 376 0 100 366 0 390 0 1.72 80 304 1533 2071 0
A#10010 -0.208163842 90 63 0 59 0 1.169 52 257 394 496 0 90 289 0 216 0 1.187 52 259 3490 3493 0 90 1198 0 1006 0 1.212 52 257 17378 19472 0
A#10011 -0.275587292 80 60 0 58 0 1.505 52 240 78 112 0 80 265 0 204 0 1.52 52 229 708 734 0 80 1107 0 954 0 1.361 52 228 3538 4202 0
A#10012 -0.401822649 100 58 0 57 0 2.053 80 259 30 45 0 100 247 0 201 0 2.417 80 270 210 285 0 100 1053 0 936 0 2.313 80 275 1107 1685 0
A#10013 0.343485229 100 57 0 56 0 2.324 80 241 26 50 0 110 232 0 189 0 2.506 80 260 231 347 0 110 1059 0 928 0 2.09 80 286 937 1793 0
A#10014 0.268816881 90 60 0 57 0 1.323 52 223 85 156 0 100 238 0 189 0 1.411 80 238 727 1058 0 90 990 0 941 0 1.408 52 218 3842 5675 0

Total number of rows: 43200

Table truncated, full table size 5647 Kbytes.




Supplementary data files not provided

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap