NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM13269 Query DataSets for GSM13269
Status Public on Feb 09, 2004
Title liver, 48h starved, chip 20
Sample type RNA
 
Channel 1
Source name pool2, starved
Organism Mus musculus
Extracted molecule total RNA
 
Channel 2
Source name pool2, 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. Pool2 normal = 3 animals (No. N4, N5 and N6) fed during and before the 48h experiment with standard food, ad libitum; pool2 starved = 3 animals (No. St4, St5 and St6) fed before the experiment with standard food, ad libitum, starved during the 48h 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 = mp7_031
 
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)
GSE852 liver, 48h 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#1 100 41 0 53 0 2.011 80 391 32 40 0 100 96 0 152 0 2.805 80 390 180 204 0 100 441 0 867 0 1.906 80 378 1199 1560 0
A#10 -0.262625731 80 46 0 53 0 1.246 52 264 151 203 0 80 121 0 152 0 1.288 52 262 937 1169 0 80 645 0 790 0 1.302 52 264 6617 7433 0
A#100 70 48 0 53 0 1.465 32 187 95 86 0 70 129 0 152 0 1.43 32 187 575 495 0 70 670 0 835 0 1.612 32 192 3864 3008 0
A#1000 0.661490617 90 57 0 57 0 1.268 52 262 206 152 0 90 175 0 165 0 1.302 52 262 1365 877 0 90 1026 0 864 0 1.299 52 262 9722 5749 0
A#10000 -0.091451043 110 73 0 83 0 1.299 80 247 160 201 0 110 301 0 304 0 1.285 80 253 1041 1124 0 110 1880 0 1759 0 1.283 80 276 6916 7277 0
A#10001 0.332559706 100 70 0 78 0 1.382 80 214 88 84 0 100 275 0 283 0 1.414 80 213 561 514 0 90 1710 0 1606 0 1.527 52 210 4329 3492 0
A#10002 0.384156739 100 82 0 91 0 2.068 80 214 63 80 -50 100 360 0 340 0 2.004 80 212 399 492 -50 100 2437 0 2026 0 1.98 80 218 2523 3053 -50
A#10003 -0.141354051 100 115 0 111 0 4.089 80 230 -9 43 -50 100 603 0 496 0 4.578 80 245 -120 225 -50 100 3632 0 2949 0 4.55 80 231 -405 1565 -50
A#10004 -0.351938049 110 108 0 113 0 1.176 80 298 395 546 0 110 546 0 477 0 1.236 80 298 2738 2978 0 110 3502 0 2896 0 1.24 80 290 18754 19310 0
A#10005 0.418063696 100 100 0 102 0 1.246 80 238 233 214 0 100 480 0 422 0 1.228 80 238 1541 1166 0 100 3121 0 2476 0 1.219 80 238 10289 7507 0
A#10006 -0.06550007 110 92 0 96 0 1.155 80 241 504 552 0 110 400 0 383 0 1.151 80 241 3352 3032 0 110 2630 0 2313 0 1.163 80 245 22234 19712 0
A#10007 -0.131763833 110 84 0 92 0 1.124 80 266 612 733 0 110 361 0 353 0 1.11 80 266 4336 4092 0 110 2241 0 2039 0 1.128 80 264 29102 26539 0
A#10008 0.042464106 110 80 0 88 0 1.176 80 273 264 299 0 110 341 0 331 0 1.198 80 267 1771 1671 0 110 2155 0 1940 0 1.161 80 261 11785 10673 0
A#10009 100 79 0 83 0 2.234 80 257 33 37 -50 100 322 0 312 0 2.016 80 256 226 186 -50 100 2005 0 1835 0 2.389 80 256 1323 1174 -50
A#1001 0.256945298 100 55 0 54 0 1.473 80 340 334 330 0 100 174 0 157 0 1.473 80 340 2275 1747 0 100 931 0 832 0 1.561 80 340 15874 11578 0
A#10010 -0.44818366 110 81 0 81 0 1.189 80 298 541 762 0 110 314 0 300 0 1.2 80 297 3663 4278 0 110 1960 0 1687 0 1.189 80 303 23902 27597 0
A#10011 -0.433270698 100 72 0 75 0 1.437 80 264 107 155 0 100 292 0 262 0 1.366 80 281 620 947 0 100 1662 0 1517 0 1.377 80 293 4733 5966 0
A#10012 0.290968614 100 64 0 73 0 1.297 80 223 145 139 0 100 248 0 247 0 1.229 80 231 922 807 0 100 1375 0 1420 0 1.26 80 230 6616 5302 0
A#10013 100 66 0 73 0 3.984 80 226 -1 33 -50 100 232 0 251 0 3.461 80 226 21 210 -50 100 1350 0 1399 0 3.085 80 227 123 1429 -50
A#10014 0.340021086 100 66 0 72 0 1.236 80 278 172 166 0 100 238 0 239 0 1.261 80 251 1108 950 0 100 1495 0 1410 0 1.346 80 286 7770 5595 0

Total number of rows: 43200

Table truncated, full table size 5764 Kbytes.




Supplementary data files not provided

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