NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM13251 Query DataSets for GSM13251
Status Public on Feb 09, 2004
Title liver, 48h starved, chip 2
Sample type RNA
 
Channel 1
Source name pool3, starved
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 starved = 4 animals (No. St7, St8, St9 and St10) 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 = mp6_028
 
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 0.010695633 110 40 0 46 0 1.469 80 462 76 68 0 110 88 0 140 0 1.362 80 492 536 509 0 120 366 0 689 0 1.767 120 540 2562 2625 0
A#10 -0.438815654 110 39 0 46 0 1.202 80 377 312 417 0 110 87 0 140 0 1.165 80 363 2147 3027 0 110 340 0 697 0 1.156 80 363 14617 18273 0
A#100 0.08686052 100 46 0 53 0 1.432 80 241 75 74 0 100 122 0 188 0 1.404 80 269 558 530 0 100 652 0 950 0 1.398 80 251 3892 3145 0
A#1000 0.431256491 110 47 0 50 0 1.2 80 252 190 133 0 100 117 0 155 0 1.194 80 234 1285 1013 0 110 653 0 810 0 1.196 80 256 9073 5852 0
A#10000 -0.239648624 110 51 0 52 0 1.25 80 178 170 190 0 110 149 0 178 0 1.195 80 191 1100 1397 0 110 739 0 898 0 1.223 80 194 7417 7947 0
A#10001 0.393906469 110 53 0 53 0 1.236 80 242 183 141 0 110 150 0 180 0 1.209 80 201 1228 1038 0 110 800 0 934 0 1.213 80 250 8435 6212 0
A#10002 0.423809969 110 55 0 56 0 1.147 80 262 379 285 0 120 158 0 190 0 1.198 120 190 2475 2054 0 110 923 0 1009 0 1.155 80 267 17437 12611 0
A#10003 -0.274855526 110 53 0 56 0 1.184 80 245 358 394 0 110 163 0 190 0 1.198 80 215 2212 2931 0 110 929 0 1009 0 1.142 80 229 15477 17385 0
A#10004 -0.088114797 120 53 0 55 0 1.181 120 238 941 951 0 120 166 0 190 0 1.191 120 269 6277 7061 0 120 912 0 960 0 1.189 120 206 43554 42211 0
A#10005 0.431767619 120 55 0 56 0 1.243 120 241 274 209 0 110 162 0 201 0 1.15 80 279 1932 1565 0 120 877 0 996 0 1.194 120 228 12596 9138 0
A#10006 0.166429036 120 56 0 58 0 1.186 120 200 920 812 0 110 175 0 210 0 1.093 80 242 6515 6111 0 120 904 0 1046 0 1.16 120 190 42458 35642 0
A#10007 0.087352871 120 57 0 58 0 1.183 120 151 556 509 0 120 190 0 216 0 1.185 120 164 3722 3792 0 120 961 0 1145 0 1.14 120 146 25739 22541 0
A#10008 -0.356923696 120 56 0 60 0 1.287 120 169 244 295 0 120 181 0 218 0 1.332 120 164 1585 2188 0 120 996 0 1176 0 1.234 120 149 11253 12850 0
A#10009 0.126795827 100 56 0 60 0 1.313 80 206 116 101 0 110 178 0 218 0 1.29 80 219 818 746 0 110 992 0 1164 0 1.252 80 188 5123 4452 0
A#1001 0.167241938 100 46 0 49 0 1.168 80 256 331 286 0 110 107 0 149 0 1.154 80 234 2343 2111 0 110 566 0 779 0 1.155 80 256 15696 12816 0
A#10010 -0.631103502 120 55 0 58 0 1.229 120 284 426 609 0 120 173 0 213 0 1.202 120 290 2753 4312 0 120 902 0 1099 0 1.152 120 239 18836 26095 0
A#10011 -0.335310046 120 55 0 57 0 1.27 120 256 253 303 0 110 171 0 209 0 1.169 80 303 1761 2273 0 120 965 0 1082 0 1.287 120 247 11339 13373 0
A#10012 0.194974942 110 56 0 58 0 1.316 80 243 125 104 0 110 177 0 214 0 1.299 80 281 834 745 0 110 978 0 1108 0 1.33 80 236 5605 4580 0
A#10013 -0.059339344 110 57 0 59 0 1.195 80 268 238 239 0 110 183 0 227 0 1.186 80 253 1545 1698 0 110 1041 0 1181 0 1.185 80 248 10545 10350 0
A#10014 -0.07661868 110 60 0 62 0 1.192 80 292 245 248 0 110 207 0 244 0 1.195 80 283 1500 1768 0 110 1183 0 1316 0 1.195 80 278 11236 10553 0

Total number of rows: 43200

Table truncated, full table size 5709 Kbytes.




Supplementary data files not provided
| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap