NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM27249 Query DataSets for GSM27249
Status Public on Nov 01, 2005
Title spt5.4.4
Sample type RNA
 
Channel 1
Source name OY43 (spt5-4) @ 39 deg
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
Channel 2
Source name OY94 (wt) @ 39 deg
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
 
Description Reference and mutant strains grown at 30oC to 1-2 x 10exp7 cells/ml. shifted to 39 deg for 45 minutes. RNA extracted.
gpr file # 88
 
Submission date Jul 22, 2004
Last update date May 28, 2005
Contact name Todd A Burckin
E-mail(s) [email protected]
Phone 831 459-5245
Fax 831 459-3139
Organization name University of California Santa Cruz
Department Molecular, Cell, & Developmental Biology
Lab Hartzog Lab
Street address 1156 High Street
City Santa Cruz
State/province CA
ZIP/Postal code 95062
Country USA
 
Platform ID GPL1370
Series (1)
GSE1610 Analyzing the role of transcription elongation factors Spt4-5 in splicing

Data table header descriptions
ID_REF
X X-coordinate of spot
Y Y-coordinate of spot
Dia. spot diameter in microns
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 Means (635/532)
Median of Ratios (635/532)
Mean of Ratios (635/532)
Ratios SD (635/532)
Rgn Ratio (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 (base 2)
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 n/a
SNR 532 n/a
Flags User defined flag (default=0)
Normalize n/a

Data table
ID_REF 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 R� (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 2890 25730 90 85 86 17 65 66 15 57 25 0 33174 32605 8458 58 61 15 100 100 0 0.001 0.001 0 0 1 0.001 0.219 52 391 33136 32568 20 33116 21 32547 4481 1695481 1.333 2169.6 0 0
2 3070 25740 60 72 74 21 59 62 15 43 12 0 491 492 245 60 61 13 100 100 0 0.03 0.035 0.042 0.044 2.275 0.022 0.082 32 173 444 447 -5.051 13 431 15 432 2355 15741 0.8 33.154 0 0
3 3220 25730 70 83 86 24 61 61 14 62 34 0 119 117 22 55 58 11 100 100 0 0.344 0.403 0.5 0.381 2.6 0.502 0.246 32 230 86 87 -1.541 22 64 25 62 2751 3732 1.786 5.364 0 0
4 3390 25730 100 190 189 27 61 62 15 100 100 0 206 210 32 56 58 13 100 100 0 0.86 0.831 0.835 0.836 1.333 0.842 0.849 80 443 279 282 -0.218 129 150 128 154 15127 16767 8.467 11.692 0 0
5 3570 25740 90 90 94 24 62 65 16 82 42 0 94 97 17 55 58 14 96 82 0 0.718 0.762 0.783 0.742 2.172 0.992 0.181 52 354 67 74 -0.478 28 39 32 42 4887 5059 1.813 2.786 0 0
6 3740 25740 100 3902 3752 713 61 63 16 100 100 0 3121 2950 558 54 56 12 100 100 0 1.252 1.275 1.282 1.27 1.202 1.284 0.977 80 431 6908 6587 0.325 3841 3067 3691 2896 300169 236030 230.563 241.167 0 0
7 3920 25730 100 302 302 79 62 63 15 98 98 0 299 293 85 54 56 11 98 98 0 0.98 1.004 1.004 1.041 1.393 1 0.907 80 413 485 479 -0.03 240 245 240 239 24152 23414 15.933 21.545 0 0
8 4080 25740 110 3661 3424 684 60 62 15 100 100 0 3932 3670 707 55 56 11 100 100 0 0.929 0.931 0.938 0.929 1.159 0.939 0.973 80 445 7478 6979 -0.107 3601 3877 3364 3615 273902 293638 224.133 328.545 0 0
9 4260 25750 100 1398 1305 388 60 61 15 100 100 0 949 863 291 53 54 11 100 100 0 1.493 1.537 1.54 1.62 1.311 1.515 0.97 80 419 2234 2055 0.579 1338 896 1245 810 104368 69048 82.933 73.545 0 0
10 4430 25750 100 233 230 31 59 60 14 100 100 0 177 175 31 53 54 10 100 100 0 1.403 1.402 1.402 1.426 1.323 1.414 0.859 80 408 298 293 0.489 174 124 171 122 18370 14000 12.143 12.1 0 0
11 4600 25760 100 88 91 25 58 59 13 80 53 0 110 109 20 56 57 11 100 93 0 0.556 0.623 0.632 0.585 2.188 0.745 0.327 80 420 84 86 -0.848 30 54 33 53 7296 8753 2.462 4.727 0 0
12 4780 25770 100 187 194 39 59 60 14 100 100 0 185 188 35 57 58 10 100 100 0 1 1.031 1.019 1.018 1.45 1.066 0.779 80 415 256 266 0 128 128 135 131 15494 15072 9.571 13 0 0
13 4950 25760 110 100 102 21 57 59 14 92 81 0 122 124 23 55 56 10 98 98 0 0.642 0.652 0.642 0.604 2.029 0.659 0.5 80 479 110 114 -0.64 43 67 45 69 8129 9952 3.071 6.8 0 0
14 5130 25780 100 81 84 20 56 57 13 77 48 0 97 98 18 53 54 9 98 92 0 0.568 0.622 0.613 0.542 2.433 0.727 0.308 80 415 69 73 -0.816 25 44 28 45 6705 7861 2.077 4.889 0 0
15 5290 25780 90 83 86 19 57 57 14 76 46 0 76 77 14 53 54 10 84 59 0 1.13 1.208 1.316 1.115 2.5 1.919 0.196 52 350 49 53 0.177 26 23 29 24 4492 4014 2.071 2.3 0 0
16 5470 25780 80 71 73 18 55 56 13 57 25 0 75 76 15 53 54 10 78 55 0 0.727 0.783 0.833 0.827 3.255 1.335 0.174 52 307 38 41 -0.459 16 22 18 23 3794 3965 1.308 2.2 0 0
17 5640 25750 100 58 59 15 55 56 12 27 12 0 58 60 13 53 54 11 30 12 0 0.6 0.571 1.45 1.289 3.619 2.423 0.024 80 426 8 11 -0.737 3 5 4 7 4688 4791 0.25 0.545 -50 0
18 5810 25760 100 56 56 13 56 57 12 17 5 0 55 55 11 54 55 10 20 7 0 0 0 1.05 0.973 3.168 3.678 0.01 80 449 1 1 0 1 0 1 4505 4423 -0.083 0 -50 0
19 6000 25790 90 218 214 37 54 56 13 100 100 0 160 159 27 54 53 9 100 100 0 1.547 1.524 1.505 1.535 1.354 1.569 0.817 52 366 270 265 0.63 164 106 160 105 11126 8255 12.154 11.778 0 0
20 6160 25770 90 72 75 14 55 57 19 40 11 0 71 73 12 51 53 18 53 15 0 0.85 0.909 0.944 0.838 2.691 1.711 0.068 52 372 37 42 -0.234 17 20 20 22 3884 3779 0.947 1.111 -50 0

Total number of rows: 5760

Table truncated, full table size 1007 Kbytes.




Supplementary data files not provided

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