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Sample GSM13252 Query DataSets for GSM13252
Status Public on Feb 09, 2004
Title liver, 48h starved, chip 3
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_029
 
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 0.308490499 90 85 0 108 0 1.496 52 348 135 117 0 80 429 0 624 0 1.421 52 279 1000 844 0 90 1809 0 1998 0 1.444 52 338 4145 2750 0
A#10 -0.192050182 100 71 0 82 0 1.237 80 332 594 686 0 100 357 0 421 0 1.21 80 346 4091 5224 0 100 1473 0 1377 0 1.218 80 332 17971 17320 0
A#100 0.083475972 100 66 0 80 0 1.62 80 236 81 79 0 100 290 0 408 0 1.593 80 246 638 579 0 90 1187 0 1290 0 1.391 52 271 2479 2154 0
A#1000 0.13024228 100 73 0 84 0 1.347 80 238 215 185 0 100 360 0 437 0 1.234 80 224 1445 1411 0 100 1375 0 1365 0 1.282 80 218 6353 4602 0
A#10000 -0.458813873 110 123 0 137 0 1.276 80 247 172 256 0 110 657 0 829 0 1.264 80 251 1258 1873 0 100 2827 0 2615 0 1.298 80 255 5542 6264 0
A#10001 0.536873446 100 116 0 126 0 1.309 80 265 202 166 0 100 598 0 758 0 1.339 80 270 1530 1204 0 100 2442 0 2389 0 1.274 80 262 6171 3904 0
A#10002 0.462517999 110 98 0 108 0 1.161 80 250 453 397 0 110 517 0 659 0 1.168 80 249 3108 2945 0 110 2046 0 1966 0 1.179 80 237 13596 9397 0
A#10003 -0.059600035 100 83 0 94 0 1.192 80 251 398 480 0 100 418 0 514 0 1.187 80 255 2871 3500 0 110 1644 0 1495 0 1.19 80 243 11331 11731 0
A#10004 -0.069930265 120 74 0 84 0 1.324 120 244 1117 1253 0 110 375 0 452 0 1.095 80 274 7913 9359 0 120 1427 0 1299 0 1.36 120 235 33561 30664 0
A#10005 0.560649012 110 71 0 78 0 1.17 80 180 428 346 0 110 339 0 400 0 1.15 80 208 3154 2563 0 110 1260 0 1156 0 1.219 80 188 12435 8423 0
A#10006 -0.03349019 120 68 0 75 0 1.345 120 163 1036 1148 0 120 309 0 361 0 1.307 120 176 7556 8840 0 110 1151 0 1087 0 1.134 80 208 34276 30057 0
A#10007 0.072866618 120 68 0 73 0 1.312 120 154 895 931 0 120 310 0 361 0 1.247 120 157 6152 6754 0 120 1146 0 1097 0 1.369 120 194 25914 22105 0
A#10008 -0.019582381 110 68 0 74 0 1.123 80 208 731 792 0 110 303 0 376 0 1.13 80 208 4960 5804 0 110 1236 0 1122 0 1.134 80 202 21387 19290 0
A#10009 0.2945379 100 67 0 77 0 1.396 80 284 168 143 0 110 303 0 398 0 1.331 80 281 1144 1121 0 110 1267 0 1232 0 1.373 80 315 4671 3401 0
A#1001 0.460817797 120 72 0 81 0 2.3 120 248 56 42 0 100 359 0 420 0 2.106 80 269 278 313 0 120 1402 0 1336 0 2.538 120 258 1509 1053 0
A#10010 -0.757420427 120 66 0 77 0 1.393 120 301 627 1053 0 120 319 0 387 0 1.342 120 262 4192 7606 0 120 1177 0 1135 0 1.352 120 301 18542 25367 0
A#10011 -0.229838191 110 68 0 78 0 1.191 80 323 331 418 0 110 324 0 391 0 1.243 80 283 2368 3043 0 110 1180 0 1200 0 1.236 80 310 9609 10359 0
A#10012 0.3807262 110 68 0 76 0 1.313 80 282 192 160 0 110 321 0 388 0 1.341 80 282 1243 1133 0 110 1164 0 1204 0 1.338 80 283 5297 3732 0
A#10013 -0.065013341 110 69 0 77 0 1.282 80 278 161 171 0 110 325 0 387 0 1.273 80 274 1077 1331 0 110 1195 0 1164 0 1.287 80 260 4638 4120 0
A#10014 -0.088750935 110 70 0 78 0 1.257 80 281 172 192 0 110 336 0 395 0 1.341 80 287 1213 1469 0 110 1234 0 1198 0 1.351 80 293 5192 4771 0

Total number of rows: 43200

Table truncated, full table size 5782 Kbytes.




Supplementary data files not provided

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