NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM13287 Query DataSets for GSM13287
Status Public on Feb 09, 2004
Title liver, 24h starved, chip 18
Sample type RNA
 
Channel 1
Source name pool3, normal
Organism Mus musculus
Extracted molecule total RNA
 
Channel 2
Source name pool3, 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. Pool3 normal = 6 animals (No. N1, N2, N3, N4, N5 and N6) fed during and before the 24h experiment with standard food, ad libitum; pool3 starved = 6 animals (No. St1, St2, St3, St4, St5 and St6) fed before the experiment with standard food, ad libitum, starved during the 24h 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 = mp4_013
 
Submission date Dec 05, 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)
GSE853 liver, 24h 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 1.830118403 100 46 0 46 0 1.719 80 316 78 76 0 100 93 0 91 0 1.788 80 299 359 320 0 100 378 0 404 0 2.112 80 299 1635 1880 0
A#10 -0.139487886 100 48 0 49 0 1.28 80 262 275 270 0 110 115 0 104 0 1.257 80 277 1300 1190 0 100 443 0 510 0 1.303 80 233 6580 6699 0
A#100 -0.001646636 100 55 0 58 0 2.043 80 315 64 76 0 90 132 0 142 0 1.962 52 271 278 345 0 100 625 0 676 0 1.835 80 335 1496 2007 0
A#1000 100 64 0 64 0 3.205 80 256 20 37 -50 90 192 0 171 0 2.629 52 246 154 220 -50 100 780 0 806 0 2.872 80 244 803 860 -50
A#10000 -0.321153437 100 70 0 67 0 1.419 80 230 178 166 0 90 192 0 166 0 1.343 52 246 749 763 0 100 1004 0 835 0 1.624 80 230 4256 4091 0
A#10001 0.402787959 100 69 0 67 0 1.53 80 226 117 156 0 100 202 0 174 0 1.452 80 246 483 677 0 90 913 0 832 0 1.426 52 217 2597 3907 0
A#10002 0.221470547 100 71 0 68 0 1.346 80 200 236 274 0 100 215 0 178 0 1.344 80 205 996 1176 0 100 944 0 908 0 1.518 80 217 5278 6821 0
A#10003 0.038661878 100 75 0 68 0 1.232 80 220 315 346 0 100 209 0 179 0 1.267 80 220 1347 1495 0 100 978 0 919 0 1.47 80 195 7970 8306 0
A#10004 0.406888433 110 76 0 68 0 1.163 80 264 780 962 0 100 203 0 176 0 1.185 80 241 3494 4177 0 120 933 0 842 0 3.209 120 190 17534 23171 0
A#10005 0.594937665 100 72 0 68 0 1.367 80 250 167 247 0 100 206 0 176 0 1.379 80 252 767 1072 0 110 847 0 850 0 2.003 80 194 4152 6016 0
A#10006 -0.146118031 110 72 0 66 0 1.198 80 237 802 756 0 110 206 0 175 0 1.155 80 264 3421 3328 0 120 852 0 868 0 3.774 120 223 18110 17654 0
A#10007 0.309228106 100 72 0 64 0 1.176 80 228 680 832 0 100 193 0 162 0 1.158 80 243 3026 3457 0 110 878 0 785 0 2.455 80 197 16059 19302 0
A#10008 0.064201434 110 72 0 65 0 1.284 80 228 396 437 0 110 179 0 162 0 1.271 80 247 1730 1841 0 110 862 0 788 0 1.364 80 207 9372 10603 0
A#10009 0.289748159 100 68 0 66 0 1.766 80 215 87 118 0 90 176 0 159 0 1.548 52 209 465 596 0 80 838 0 785 0 1.631 52 185 2323 3298 0
A#1001 0.26984211 100 58 0 57 0 1.292 80 238 188 227 0 110 143 0 143 0 1.337 80 279 786 943 0 100 674 0 673 0 1.436 80 244 4279 5736 0
A#10010 -0.346989297 100 67 0 64 0 1.197 80 235 532 473 0 100 187 0 163 0 1.198 80 277 2223 1937 0 110 882 0 783 0 1.734 80 253 12185 11113 0
A#10011 0.045502106 100 71 0 64 0 1.293 80 257 237 251 0 100 202 0 164 0 1.401 80 269 1000 1079 0 100 955 0 793 0 1.707 80 220 5348 6217 0
A#10012 0.152331069 90 73 0 64 0 1.605 52 207 89 123 0 90 200 0 168 0 1.486 52 221 423 506 0 90 962 0 815 0 1.49 52 219 2334 2945 0
A#10013 -0.056717846 100 72 0 64 0 1.33 80 222 212 226 0 100 199 0 168 0 1.351 80 228 897 923 0 110 853 0 799 0 2.032 80 242 4816 5542 0
A#10014 0.079752797 100 71 0 65 0 1.386 80 244 216 246 0 100 197 0 167 0 1.48 80 244 984 1040 0 100 825 0 804 0 2.3 80 239 4818 5778 0

Total number of rows: 43200

Table truncated, full table size 5651 Kbytes.




Supplementary data files not provided

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