NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM13285 Query DataSets for GSM13285
Status Public on Feb 09, 2004
Title liver, 24h starved, chip 8
Sample type RNA
 
Channel 1
Source name pool1, starved
Organism Mus musculus
Extracted molecule total RNA
 
Channel 2
Source name pool1, 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. Pool1 normal = 3 animals (No. N1, N2 and N3) fed during and before the 24h experiment with standard food, ad libitum; pool1 starved = 3 animals (No. St1, St2 and St3) 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_011
 
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
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 -0.34098845 110 41 0 36 0 2.125 80 440 15 35 0 110 76 0 69 0 2.13 80 439 71 188 0 110 365 0 250 0 2.557 80 439 300 1128 0
A#10 -0.186936841 100 43 0 37 0 1.302 80 319 120 147 0 100 77 0 69 0 1.295 80 319 668 770 0 100 378 0 252 0 1.286 80 319 3626 4882 0
A#100 -0.33815915 90 46 0 39 0 3.078 52 251 0 27 -50 100 89 0 78 0 2.266 80 277 27 175 0 100 461 0 300 0 2.581 80 265 -18 1059 0
A#1000 90 55 0 45 0 3.055 52 220 13 4 -50 90 128 0 98 0 3 52 220 64 38 -50 90 657 0 418 0 3.128 52 220 410 270 -50
A#10000 -0.078836937 100 51 0 44 0 1.601 80 216 65 94 0 100 119 0 103 0 1.378 80 216 397 492 0 100 585 0 459 0 1.392 80 216 2040 3147 0
A#10001 -0.140235714 100 53 0 44 0 1.615 80 229 44 76 0 100 125 0 103 0 1.435 80 226 306 395 0 100 611 0 464 0 1.467 80 237 1597 2493 0
A#10002 -0.066479072 110 55 0 46 0 1.366 80 225 94 129 0 110 140 0 111 0 1.263 80 227 544 688 0 110 717 0 532 0 1.337 80 248 3099 4472 0
A#10003 -0.417302725 110 54 0 47 0 2.021 80 231 38 73 0 110 132 0 113 0 2.06 80 245 268 384 0 110 677 0 522 0 1.56 80 238 1168 2671 0
A#10004 -0.309802892 110 53 0 46 0 1.193 80 225 318 451 0 110 127 0 104 0 1.154 80 224 1916 2397 0 110 614 0 486 0 1.156 80 227 10276 15342 0
A#10005 -0.12083493 100 52 0 46 0 1.407 80 232 67 103 0 100 124 0 103 0 1.36 80 218 437 543 0 100 602 0 492 0 1.348 80 237 2394 3460 0
A#10006 -0.032115951 100 52 0 46 0 1.197 80 243 431 501 0 110 122 0 106 0 1.171 80 244 2539 2612 0 100 607 0 500 0 1.169 80 243 14126 17064 0
A#10007 -0.26756884 110 53 0 45 0 1.276 80 237 288 396 0 110 120 0 104 0 1.277 80 237 1719 2074 0 110 592 0 470 0 1.262 80 237 9424 13820 0
A#10008 0.136842411 100 54 0 44 0 1.237 80 232 171 191 0 100 120 0 103 0 1.253 80 235 984 995 0 100 579 0 454 0 1.221 80 232 5541 6628 0
A#10009 -0.24267691 100 52 0 45 0 1.946 80 230 35 62 0 90 114 0 101 0 1.566 52 221 238 314 0 100 586 0 451 0 1.79 80 231 1050 2001 0
A#1001 -0.34207905 100 49 0 41 0 2.048 80 250 22 70 0 110 108 0 86 0 2.207 80 260 140 382 0 100 489 0 350 0 2.078 80 250 867 2404 0
A#10010 -0.205709079 110 49 0 44 0 1.272 80 244 204 272 0 110 115 0 98 0 1.248 80 261 1189 1446 0 110 577 0 443 0 1.253 80 262 6597 9261 0
A#10011 0.076258222 100 50 0 44 0 1.561 80 260 95 115 0 110 119 0 100 0 1.44 80 273 530 614 0 110 515 0 447 0 1.428 80 260 2821 3931 0
A#10012 -0.0029838 90 50 0 44 0 1.769 52 235 43 58 0 90 118 0 97 0 1.584 52 221 263 330 0 100 502 0 433 0 1.471 80 229 1261 2006 0
A#10013 0.132134751 100 51 0 44 0 1.495 80 242 105 120 0 100 118 0 97 0 1.385 80 226 569 638 0 100 548 0 421 0 1.319 80 222 3233 4163 0
A#10014 0.133160949 100 51 0 45 0 1.393 80 251 122 146 0 100 117 0 99 0 1.416 80 251 750 774 0 100 574 0 449 0 1.386 80 251 4201 4992 0

Total number of rows: 43200

Table truncated, full table size 5559 Kbytes.




Supplementary data files not provided

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