|
Status |
Public on Feb 09, 2004 |
Title |
liver, 24h starved, chip 20 |
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_015
|
|
|
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) |
|
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 |