NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM63195 Query DataSets for GSM63195
Status Public on Jul 06, 2006
Title E02_50
Sample type RNA
 
Channel 1
Source name WT (BY4700) on M.Gln
Organism Saccharomyces cerevisiae
Characteristics WT (BY4700) on M.Gln
Extracted molecule total RNA
Label Cy3
 
Channel 2
Source name WT (BY4700) on M.Gln + rapamycin (20 min)
Organism Saccharomyces cerevisiae
Characteristics WT (BY4700) on M.Gln + rapamycin (20 min)
Extracted molecule total RNA
Label Cy5
 
 
Description scan at low laser power and a PMT gain avoiding saturation
Data processing VALUE = Log Ratio (635 /532), NO normalization
 
Submission date Jul 07, 2005
Last update date Jul 11, 2005
Contact name Bart Scherens
Organization name IRMW-ULB
Department Microbiology
Street address Av. E. Gryson, 1
City Brussels
ZIP/Postal code 1070
Country Belgium
 
Platform ID GPL2602
Series (1)
GSE2891 Transcriptional response to nitrogen availability in yeast

Data table header descriptions
ID_REF
Block Block that the spot was printed in
Column Column within the block
Row Row within the block
Name ORF Name / Feature Name
X X-coordinate of spot
Y Y-coordinate of spot
Dia. spot diameter in micron
F635 Median Channel 2 (Cy5/635) median pixel intensity - feature
F635 Mean Channel 2 (Cy5/635) mean pixel intensity - feature
F635 SD Channel 2 (Cy5/635) standard deviation of pixel intensities - feature
B635 Median Channel 2 (Cy5/635) median background intensity
B635 Mean Channel 2 (Cy5/635) mean background intensity
B635 SD Channel 2 (Cy5/635) standard deviation of background
% > B635+1SD Channel 2 (Cy5/635) percent of pixels 1 StDev above background
% > B635+2SD Channel 2 (Cy5/635) percent of pixels 2 StDevs above background
F635 % Sat. Channel 2 (Cy5/635) percent of pixels saturated
F532 Median Channel 1 (Cy3/532) median pixel intensity - feature
F532 Mean Channel 1 (Cy3/532) mean pixel intensity - feature
F532 SD Channel 1 (Cy3/532) standard deviation of pixel intensities - feature
B532 Median Channel 1 (Cy3/532) median background intensity
B532 Mean Channel 1 (Cy3/532) mean background intensity
B532 SD Channel 1 (Cy3/532) standard deviation of background
% > B532+1SD Channel 1 (Cy3/532) percent of pixels 1 StDev above background
% > B532+2SD Channel 1 (Cy3/532) percent of pixels 2 StDevs above background
F532 % Sat. Channel 1 (Cy3/532) percent of pixels saturated
Ratio of Medians (635/532) Ratio of Medians (635/532)
Ratio of Means (635/532) Ratio of Means (635/532)
Median of Ratios (635/532) Median of Ratios (635/532)
Mean of Ratios (635/532) Mean of Ratios (635/532)
Ratios SD (635/532) Ratios SD (635/532)
Rgn Ratio (635/532) Rgn Ratio (635/532)
Rgn Rē (635/532) Rgn R ≤ (635/532)
F Pixels Number of feature pixels
B Pixels Number of background pixels
Sum of Medians Sum of Medians
Sum of Means Sum of Means
VALUE Log ratio (635/532)
F635 Median - B635 Channel 2 (Cy5/635) background subtracted median feature intensity
F532 Median - B532 Channel 1 (Cy3/532) background subtracted median feature intensity
F635 Mean - B635 Channel 2 (Cy5/635) background subtracted mean feature intensity
F532 Mean - B532 Channel 1 (Cy3/532) background subtracted mean feature intensity
F635 Total Intensity F635 Total Intensity
F532 Total Intensity F532 Total Intensity
SNR 635
SNR 532
Flags User defined flag (default=0)
Normalize

Data table
ID_REF Block Column Row Name X Y Dia. F635 Median F635 Mean F635 SD B635 Median B635 Mean B635 SD % > B635+1SD % > B635+2SD F635 % Sat. F532 Median F532 Mean F532 SD B532 Median B532 Mean B532 SD % > B532+1SD % > B532+2SD F532 % Sat. Ratio of Medians (635/532) Ratio of Means (635/532) Median of Ratios (635/532) Mean of Ratios (635/532) Ratios SD (635/532) Rgn Ratio (635/532) Rgn Rē (635/532) F Pixels B Pixels Sum of Medians Sum of Means VALUE F635 Median - B635 F532 Median - B532 F635 Mean - B635 F532 Mean - B532 F635 Total Intensity F532 Total Intensity SNR 635 SNR 532 Flags Normalize
1 1 1 1 YMR122wa_ OL 4060 23990 120 2107 2038 552 43 52 39 98 98 0 11565 10834 2669 113 121 53 100 100 0 0.18 0.186 0.18 0.18 1.381 0.182 0.936 120 758 13516 12716 -2.472 2064 11452 1995 10721 244570 1300072 50.923 202.132 0 0
2 1 2 1 YMR122wa_ OL 4280 23990 120 2244 2143 612 42 51 39 99 99 0 13011 12299 3193 123 128 59 100 100 0 0.171 0.173 0.175 0.168 1.329 0.17 0.955 120 734 15090 14277 -2.549 2202 12888 2101 12176 257172 1475921 53.641 206.288 0 0
3 1 3 1 YMR225c_ OL 4500 23990 110 111 114 60 51 57 38 60 41 0 567 578 115 131 135 56 100 100 0 0.138 0.141 0.16 0.148 2.232 0.113 0.204 80 615 496 510 -2.861 60 436 63 447 9110 46203 1.5 7.911 0 0
4 1 4 1 YMR225c_ OL 4710 23980 110 113 130 71 50 58 45 63 33 0 671 671 153 126 133 63 100 100 0 0.116 0.147 0.159 0.137 2.358 0.121 0.242 80 631 608 625 -3.113 63 545 80 545 10434 53654 1.6 8.54 0 0
5 1 5 1 YAL066w_ OL 4940 23980 120 41 50 44 44 54 43 15 3 0 131 133 50 129 139 65 11 0 0 -1.5 1.5 0.812 0.687 3.407 0.241 0.007 120 730 -1 10 null -3 2 6 4 6041 15979 -0.093 -0.092 -50 0
6 1 6 1 YAL066w_ OL 5160 23970 120 53 58 42 45 54 39 20 5 0 126 132 50 127 135 60 17 2 0 -8 2.6 0.82 0.898 3.413 0.087 0.004 120 696 7 18 null 8 -1 13 5 7003 15872 0.103 -0.05 -50 0
7 1 7 1 YCL001wa_ OL 5380 23970 120 50 56 40 47 57 40 18 5 0 167 169 65 121 134 58 39 13 0 0.065 0.188 0.465 0.53 4.316 0.003 0 120 711 49 57 -3.939 3 46 9 48 6749 20256 -0.025 0.603 -50 0
8 1 8 1 YCL001wa_ OL 5600 23970 120 59 62 39 47 56 39 18 8 0 149 162 59 132 143 60 26 7 0 0.706 0.5 0.541 0.638 4.188 0.111 0.011 120 708 29 45 -0.503 12 17 15 30 7455 19394 0.154 0.317 -50 0
9 1 9 1 empty 5820 23970 120 57 60 45 47 56 43 19 5 0 134 144 68 129 139 59 23 8 0 2 0.867 0.641 0.736 4.126 0.025 0.001 120 696 15 28 1 10 5 13 15 7247 17230 0.093 0.085 -50 0
10 1 10 1 empty 6040 23970 120 45 52 36 44 55 43 20 1 0 134 137 57 129 136 55 18 9 0 0.2 1 0.714 0.714 4.826 0.64 0.191 120 696 6 16 -2.322 1 5 8 8 6221 16488 -0.07 0.018 -50 0
11 1 11 1 empty 6260 23970 120 46 52 39 46 55 41 15 5 0 141 142 60 138 144 60 15 3 0 0 1.5 0.565 0.639 3.636 0.145 0.007 120 708 3 10 null 0 3 6 4 6278 17090 -0.073 -0.033 -50 0
12 1 12 1 empty 6480 23970 120 46 52 34 45 54 43 19 1 0 145 149 58 140 146 58 18 5 0 0.2 0.778 0.6 0.694 3.449 70.767 0 120 708 6 16 -2.322 1 5 7 9 6296 17843 -0.047 0.052 -50 0
13 1 13 1 empty 6700 23970 120 68 72 41 49 56 40 31 10 0 144 149 57 141 147 58 15 7 0 6.333 2.875 0.803 0.956 4.952 19.204 0.001 120 696 22 31 2.663 19 3 23 8 8692 17827 0.4 0.034 -50 0
14 1 14 1 empty 6920 23970 120 60 74 54 60 80 73 12 2 0 178 184 74 163 210 247 0 0 0 0 0.667 0.963 0.929 3.988 0.175 0.303 120 696 15 35 null 0 15 14 21 8833 22029 -0.082 -0.105 -50 0
15 1 15 1 empty 7140 23970 120 66 83 65 63 80 74 15 5 0 148 157 72 168 214 244 0 0 0 -0.15 -1.818 0.481 0.612 4.436 0.153 0.225 120 708 -17 9 null 3 -20 20 -11 9988 18798 0.041 -0.234 -50 0
16 1 16 1 empty 7370 23970 120 38 48 37 50 60 43 13 3 0 172 175 61 160 168 70 13 4 0 -1 -0.133 0.722 0.658 3.525 12.933 0.006 120 708 0 13 null -12 12 -2 15 5703 20969 -0.279 0.1 -50 0
17 1 17 1 Mito_SC.11667.11957.ORF8_OL 7590 23960 120 57 61 35 46 56 41 25 4 0 168 169 70 168 181 73 13 3 0 100000 15 0.473 0.509 3.902 0.019 0.001 120 682 11 16 16.61 11 0 15 1 7327 20312 0.122 -0.164 -50 0
18 1 18 1 Mito_SC.11667.11957.ORF8_OL 7810 23960 120 47 55 40 47 55 38 21 5 0 175 184 71 174 186 73 15 3 0 0 0.8 0.529 0.467 3.282 0.079 0.007 120 682 1 18 null 0 1 8 10 6561 22045 0 -0.027 -50 0
19 1 19 1 YKL 182W.5310.5380_OL 8030 23970 120 1301 1246 426 53 61 42 99 99 0 12386 11300 3517 187 194 75 100 100 0 0.102 0.107 0.108 0.103 1.387 0.105 0.936 120 694 13447 12306 -3.289 1248 12199 1193 11113 149514 1355985 28.214 148.08 0 0
20 1 20 1 YKL 182W.5310.5380_OL 8260 23970 120 1489 1430 423 46 54 45 100 99 0 13465 12551 2991 197 225 267 100 100 0 0.109 0.112 0.109 0.107 1.356 0.112 0.941 120 733 14711 13738 -3.201 1443 13268 1384 12354 171650 1506109 30.578 46.165 0 0

Total number of rows: 12800

Table truncated, full table size 2634 Kbytes.




Supplementary data files not provided

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