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Sample GSM13297 Query DataSets for GSM13297
Status Public on Feb 09, 2004
Title liver, 24h starved, chip 22
Sample type RNA
 
Channel 1
Source name pool3, normal
Organism Mus musculus
Extracted molecule total RNA
 
Channel 2
Source name pool3, starved
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 = 6 animals (No. N1, N2, N3, N4, N5 and N6) fed during and before the 24h experiment with standard food, ad libitum; pool3 starved = 6 animals (No. St1, St2, St3, St4, St5 and St6) 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_023
 
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, multiplied with -1 (dye swap)
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 -0.241789018 100 38 0 39 0 1.562 80 298 61 60 0 100 73 0 85 0 1.52 80 298 343 344 0 100 231 0 272 0 1.567 80 298 1535 1463 0
A#10 -0.247499414 100 39 0 39 0 1.354 80 303 111 99 0 100 81 0 87 0 1.281 80 301 664 602 0 110 248 0 273 0 1.326 80 316 2855 2447 0
A#100 0.340587243 80 40 0 41 0 2.466 52 210 9 31 0 90 82 0 95 0 2.806 52 268 65 183 0 90 251 0 317 0 2.507 52 256 268 694 0
A#1000 90 48 0 47 0 3.176 52 244 7 0 -50 90 124 0 115 0 3.445 52 220 25 24 -50 90 402 0 417 0 3.778 52 220 59 30 -50
A#10000 -0.391643187 100 61 0 53 0 1.549 80 236 102 82 0 100 191 0 167 0 1.411 80 237 543 478 0 100 702 0 603 0 1.351 80 253 2251 1944 0
A#10001 0.060922851 90 60 0 52 0 1.604 52 246 53 69 0 100 180 0 152 0 1.689 80 265 298 392 0 90 636 0 561 0 1.66 52 233 1469 1667 0
A#10002 0.094514838 90 60 0 54 0 1.858 52 240 69 83 0 110 184 0 152 0 1.377 80 246 353 425 0 100 670 0 540 0 1.611 80 260 1508 1934 0
A#10003 -0.155439784 100 59 0 55 0 1.321 80 269 130 120 0 100 183 0 156 0 1.367 80 226 752 737 0 100 690 0 539 0 1.362 80 257 3170 2932 0
A#10004 -0.087169094 100 58 0 53 0 1.198 80 224 274 249 0 100 188 0 152 0 1.204 80 232 1502 1475 0 100 697 0 543 0 1.188 80 243 6142 6117 0
A#10005 0.191237367 100 57 0 51 0 1.833 80 212 53 68 0 100 189 0 145 0 1.783 80 227 273 402 0 100 656 0 521 0 1.484 80 232 1159 1513 0
A#10006 -0.345656392 100 58 0 51 0 1.312 80 225 286 227 0 100 187 0 144 0 1.27 80 225 1626 1394 0 100 672 0 492 0 1.239 80 230 6794 5373 0
A#10007 0.035229955 100 60 0 51 0 1.211 80 222 277 280 0 100 190 0 150 0 1.232 80 222 1540 1643 0 100 677 0 507 0 1.199 80 222 6494 6874 0
A#10008 0.103511671 100 60 0 53 0 1.266 80 234 192 211 0 100 190 0 158 0 1.246 80 234 1083 1189 0 100 657 0 528 0 1.255 80 234 4581 4986 0
A#10009 0.446763622 90 60 0 53 0 2.145 52 232 30 44 0 80 191 0 158 0 2.307 52 201 167 272 0 80 676 0 534 0 1.792 52 212 585 1063 0
A#1001 0.089319524 100 45 0 44 0 1.711 80 285 43 59 0 110 109 0 100 0 1.559 80 274 279 334 0 100 360 0 339 0 1.63 80 277 1145 1482 0
A#10010 -0.474802697 100 57 0 52 0 1.269 80 280 238 179 0 110 185 0 149 0 1.294 80 292 1292 993 0 100 657 0 514 0 1.289 80 281 5673 4104 0
A#10011 -0.28154795 90 58 0 51 0 1.389 52 227 74 74 0 90 181 0 145 0 1.332 52 241 476 439 0 90 659 0 508 0 1.437 52 234 1817 1699 0
A#10012 60 59 0 51 0 2.363 32 155 34 45 0 60 176 0 140 0 1.842 32 145 231 243 0 60 626 0 504 0 2.509 32 155 772 1039 0
A#10013 -0.324034349 90 58 0 49 0 3.234 52 272 9 31 -50 100 169 0 138 0 2.555 80 271 122 175 0 90 684 0 507 0 2.609 52 252 242 736 0
A#10014 -0.097993397 100 62 0 51 0 1.388 80 287 105 114 0 100 190 0 149 0 1.36 80 271 654 644 0 100 709 0 534 0 1.347 80 304 2691 2521 0

Total number of rows: 43200

Table truncated, full table size 5515 Kbytes.




Supplementary data files not provided

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