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Sample GSM27248 Query DataSets for GSM27248
Status Public on Nov 01, 2005
Title spt5.4.3
Sample type RNA
 
Channel 1
Source name OY94 (wt) @ 39 deg
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
Channel 2
Source name OY43 (spt5-4) @ 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 # 65
 
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 2000 26460 90 99 105 27 94 95 20 34 13 0 18531 16687 7681 2292 2319 300 100 100 0 0 0.001 0.014 0.014 1.148 0.001 0.024 52 323 16244 14406 5 16239 11 14395 5459 867722 0.5 47.893 0 0
2 2160 26430 100 97 112 71 94 94 21 22 10 0 2277 2659 1801 2242 2291 305 27 16 0 0.086 0.043 0.078 0.092 3.565 0.017 0.151 80 406 38 435 -3.544 3 35 18 417 8925 212731 0.857 1.207 -50 0
3 2340 26430 100 106 108 23 96 98 25 22 5 0 2345 2344 260 2264 2279 272 15 3 0 0.123 0.15 0.111 0.121 2.967 0.011 0.017 80 432 91 92 -3.018 10 81 12 80 8659 187509 0.4 0.239 -50 0
4 2510 26470 60 267 268 27 102 119 54 100 100 0 2957 2948 330 2290 2340 292 93 59 0 0.247 0.252 0.254 0.266 1.72 0.136 0.346 32 159 832 824 -2.015 165 667 166 658 8574 94348 2.759 2.082 0 0
5 2690 26430 100 146 138 42 92 97 31 57 37 0 2146 2182 210 2045 2069 401 11 0 0 0.535 0.336 0.23 0.249 2.841 0.044 0.1 80 452 155 183 -0.903 54 101 46 137 11037 174533 1.323 0.282 0 0
6 2870 26460 100 9263 8240 2764 88 90 23 100 100 0 12346 11863 2929 1816 1875 413 100 100 0 0.871 0.811 0.817 0.767 1.472 0.823 0.93 80 415 19705 18199 -0.199 9175 10530 8152 10047 659211 949048 354.348 24.184 0 0
7 3040 26440 90 843 853 123 83 88 28 100 100 0 2771 2784 302 1717 1771 492 100 59 0 0.721 0.722 0.737 0.74 1.273 0.32 0.373 52 365 1814 1837 -0.472 760 1054 770 1067 44346 144747 27.321 2.059 0 0
8 3220 26450 110 1777 1751 209 83 86 24 100 100 0 4379 4414 423 1732 1785 465 100 100 0 0.64 0.622 0.637 0.624 1.181 0.571 0.824 80 474 4341 4350 -0.644 1694 2647 1668 2682 140065 353143 69.375 5.654 0 0
9 3400 26440 100 2846 2551 1021 83 84 18 100 100 0 6355 6249 1920 1769 1782 191 100 100 0 0.602 0.551 0.577 0.556 1.362 0.541 0.953 80 432 7349 6948 -0.731 2763 4586 2468 4480 204103 499939 137.056 23.387 0 0
10 3570 26440 90 447 439 69 83 85 21 100 100 0 2375 2425 218 1707 1720 191 100 100 0 0.545 0.496 0.523 0.505 1.416 0.388 0.587 52 344 1032 1074 -0.876 364 668 356 718 22803 126120 16.857 3.691 0 0
11 3750 26420 100 107 116 44 85 86 19 53 36 0 1810 1818 263 1665 1695 220 40 11 0 0.152 0.203 0.129 0.131 3.069 0.044 0.162 80 414 167 184 -2.72 22 145 31 153 9243 145454 1.579 0.559 0 0
12 3920 26420 100 155 146 52 83 85 24 68 61 0 1762 1771 213 1535 1520 250 46 11 0 0.317 0.267 0.244 0.232 3.457 0.049 0.044 80 414 299 299 -1.657 72 227 63 236 11655 141717 2.542 1.004 0 0
13 4100 26420 100 106 116 41 79 83 24 52 32 0 1391 1458 285 1348 1362 256 23 11 0 0.628 0.336 0.152 0.185 3.985 0.048 0.142 80 403 70 147 -0.671 27 43 37 110 9287 116677 1.375 0.375 -50 0
14 4270 26420 100 156 149 45 75 78 18 87 78 0 1141 1176 200 948 952 407 20 0 0 0.42 0.325 0.273 0.294 3.186 0.014 0.012 80 403 274 302 -1.253 81 193 74 228 11913 94110 3.944 0.55 0 0
15 4450 26410 100 161 147 57 74 76 23 72 62 0 486 503 143 297 429 283 31 0 0 0.46 0.354 0.497 0.396 3.925 0.017 0.004 80 425 276 279 -1.119 87 189 73 206 11785 40213 3.087 0.261 0 0
16 4630 26410 100 87 90 23 73 74 15 47 23 0 187 187 29 184 206 81 2 0 0 4.667 5.667 0.899 1.042 4.266 0.231 0.045 80 412 17 20 2.222 14 3 17 3 7227 14973 1.067 -0.235 -50 0
17 4800 26410 100 80 80 20 72 73 16 37 13 0 181 185 26 169 171 24 33 13 0 0.667 0.5 0.895 0.921 3.479 0.16 0.018 80 421 20 24 -0.585 8 12 8 16 6377 14776 0.438 0.583 -50 0
18 4980 26410 100 72 76 19 70 70 15 26 10 0 169 170 23 163 165 24 25 3 0 0.333 0.857 1 0.857 5.015 0.118 0.008 80 460 8 13 -1.585 2 6 6 7 6044 13637 0.4 0.208 -50 0
19 5180 26440 100 262 254 64 70 71 16 100 97 0 428 409 82 156 158 25 97 97 0 0.706 0.727 0.722 0.701 1.5 0.706 0.839 80 438 464 437 -0.503 192 272 184 253 20333 32690 11.438 10.04 0 0
20 5330 26410 100 95 94 27 70 71 16 60 35 0 165 166 27 139 140 26 48 17 0 0.962 0.889 0.988 0.999 3.277 0.656 0.156 80 389 51 51 -0.057 25 26 24 27 7504 13272 1.438 1 -50 0

Total number of rows: 5760

Table truncated, full table size 1029 Kbytes.




Supplementary data files not provided

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