NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM13247 Query DataSets for GSM13247
Status Public on Feb 09, 2004
Title liver, 48h sugar, chip 10
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.
Keywords = nutrient response
Keywords = starvation
Keywords = liver
Keywords = anti-aging
Keywords = longevity
Lot batch = mp8_015
 
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#1 120 51 0 39 0 3.258 120 606 19 21 0 100 141 0 80 0 3.201 80 432 137 215 0 110 470 0 311 0 3.316 80 499 707 1177 0
A#10 -0.443010601 100 47 0 38 0 1.495 80 374 313 455 0 90 125 0 77 0 1.26 52 313 1826 3260 0 100 361 0 297 0 1.445 80 370 8438 17971 0
A#100 -0.109179515 90 49 0 39 0 1.654 52 269 66 72 0 80 138 0 86 0 1.651 52 240 316 515 0 90 414 0 323 0 2.038 52 268 1308 2943 0
A#1000 0.235604716 100 55 0 41 0 1.592 80 271 102 82 0 100 148 0 91 0 1.971 80 240 551 587 0 100 523 0 361 0 1.756 80 240 2252 3485 0
A#10000 -0.085158011 100 63 0 45 0 1.49 80 260 137 163 0 100 208 0 117 0 1.543 80 264 777 1179 0 100 708 0 494 0 1.478 80 260 3591 6629 0
A#10001 0.048622459 100 65 0 45 0 2.641 80 241 41 54 0 90 225 0 117 0 2.208 52 234 194 405 0 100 761 0 461 0 1.959 80 242 824 2169 0
A#10002 -0.121575601 100 67 0 45 0 1.496 80 256 145 189 0 100 234 0 116 0 1.493 80 286 884 1360 0 100 804 0 471 0 1.407 80 256 3962 7323 0
A#10003 -0.554782423 90 68 0 45 0 1.407 52 256 150 243 0 90 246 0 116 0 1.453 52 256 822 1710 0 90 744 0 471 0 1.346 52 258 3773 9552 0
A#10004 -0.300702239 100 68 0 46 0 1.18 80 284 804 1018 0 100 261 0 116 0 1.173 80 268 4407 7089 0 100 749 0 514 0 1.125 80 304 19977 39933 0
A#10005 -0.194783096 100 69 0 47 0 1.461 80 242 105 132 0 100 254 0 124 0 1.677 80 236 533 958 0 100 786 0 523 0 1.426 80 287 2712 5232 0
A#10006 120 70 0 48 0 2.666 120 235 943 755 0 120 254 7 128 0 1.938 120 225 5030 5308 0 120 816 12 563 2 1.927 120 234 23387 29766 0
A#10007 100 72 0 48 0 1.242 80 201 534 486 -50 100 285 0 127 0 1.247 80 221 2810 3281 -50 100 927 0 572 0 1.828 80 206 11749 18731 -50
A#10008 0.074309578 100 72 0 47 0 1.275 80 258 274 288 0 100 273 0 128 0 1.315 80 299 1609 2057 0 100 897 0 569 0 1.264 80 288 6939 11350 0
A#10009 -0.346581303 90 71 0 46 0 2.341 52 263 42 70 0 90 268 0 125 0 2.011 52 284 311 464 0 90 843 0 505 0 1.706 52 242 1348 2771 0
A#1001 -0.140951363 100 54 0 41 0 1.503 80 266 133 145 0 100 137 0 86 0 1.472 80 257 800 1025 0 100 537 0 332 0 1.617 80 228 3123 5777 0
A#10010 -0.396561813 100 71 0 46 0 1.289 80 295 590 803 0 100 247 0 120 0 1.332 80 296 3396 5671 0 100 828 0 514 0 1.217 80 310 14836 32022 0
A#10011 -0.448816353 100 71 0 46 0 1.522 80 322 174 235 0 100 253 0 125 0 1.567 80 332 755 1657 0 100 822 0 550 0 1.542 80 284 3951 9002 0
A#10012 0.66458564 60 73 0 49 0 3.052 32 153 21 43 0 50 296 0 175 0 2.847 12 91 284 288 0 100 813 0 534 0 2.357 80 290 541 1409 0
A#10013 0.526956063 80 74 0 46 0 2.669 52 238 7 39 0 70 256 0 127 0 3.334 32 187 94 254 0 90 770 0 491 0 2.465 52 246 475 1533 0
A#10014 -0.307556809 100 69 0 46 0 2.673 80 338 54 72 0 100 235 0 120 0 2.639 80 332 278 460 0 100 834 0 504 0 2.182 80 347 1127 2641 0

Total number of rows: 43200

Table truncated, full table size 5581 Kbytes.




Supplementary data files not provided

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