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Sample GSM27237 Query DataSets for GSM27237
Status Public on Nov 01, 2005
Title spt4d.4
Sample type RNA
 
Channel 1
Source name GHY524 (spt4D) @ 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 # 91
 
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 2860 25830 100 66 69 18 69 70 19 13 3 0 16150 16084 11283 105 107 22 100 100 0 0 0 0 0 1 37781.129 0 80 402 16042 15979 -3 16045 0 15979 5482 1286729 -0.053 726.227 0 0
2 3030 25810 100 69 73 20 70 70 18 22 6 0 112 156 108 88 92 24 48 33 0 -0.042 0.044 0.442 0.538 4.371 0.023 0.006 80 371 23 71 -1 24 3 68 5845 12502 0.167 2.667 -50 0
3 3200 25810 100 69 68 18 67 69 19 15 1 0 89 91 17 74 75 13 55 27 0 0.133 0.059 0.455 0.47 4.129 0.116 0.004 80 405 17 18 -2.907 2 15 1 17 5463 7275 -0.053 1.231 -50 0
4 3380 25840 70 94 98 20 71 73 20 59 18 0 85 88 17 71 72 11 62 40 0 1.643 1.588 1.485 1.406 2.962 4.458 0.033 32 224 37 44 0.716 23 14 27 17 3142 2809 1.25 1.455 -50 0
5 3550 25810 100 75 78 22 68 71 19 27 8 0 80 82 13 71 71 12 40 16 0 0.778 0.909 1.313 1.12 4.935 5.748 0.025 80 421 16 21 -0.363 7 9 10 11 6209 6582 0.368 0.917 -50 0
6 3730 25830 100 1272 1228 331 72 75 20 100 100 0 892 873 269 73 73 12 100 100 0 1.465 1.445 1.488 1.488 1.264 1.419 0.941 80 403 2019 1956 0.551 1200 819 1156 800 98246 69820 57.65 66.667 0 0
7 3900 25830 100 484 532 191 69 72 21 100 100 0 430 472 190 70 71 15 100 100 0 1.153 1.152 1.207 1.194 1.487 1.123 0.828 80 390 775 865 0.205 415 360 463 402 42558 37749 21.905 26.733 0 0
8 4070 25830 110 348 352 62 66 69 20 100 100 0 371 375 59 67 68 15 100 100 0 0.928 0.929 0.933 0.927 1.24 0.922 0.902 80 438 586 594 -0.108 282 304 286 308 28184 30005 14.15 20.467 0 0
9 4250 25840 100 843 890 415 67 69 18 100 100 0 580 729 506 69 69 14 98 97 0 1.519 1.247 1.414 1.449 1.677 1.084 0.798 80 416 1287 1483 0.603 776 511 823 660 71233 58348 45.611 47.143 0 0
10 4420 25840 90 350 344 71 65 68 18 100 100 0 255 250 42 70 71 13 100 100 0 1.541 1.55 1.554 1.534 1.286 1.619 0.864 52 366 470 459 0.623 285 185 279 180 17870 13004 15.333 13.769 0 0
11 4610 25850 90 139 138 38 83 90 36 71 26 0 182 174 31 82 85 21 100 94 0 0.56 0.598 0.594 0.521 2.469 0.734 0.333 52 356 156 147 -0.837 56 100 55 92 7185 9073 1.333 4.238 0 0
12 4780 25860 100 482 536 233 132 166 144 97 72 0 473 523 243 116 129 56 98 97 0 0.98 0.993 1.018 1.013 1.518 0.982 0.817 80 415 707 811 -0.029 350 357 404 407 42913 41843 2.569 7.036 0 0
13 4950 25860 110 254 269 74 117 130 61 91 63 0 300 308 62 132 134 26 100 98 0 0.815 0.864 0.807 0.791 1.925 0.914 0.588 80 459 305 328 -0.294 137 168 152 176 21508 24632 2.279 6.692 0 0
14 5130 25860 80 134 136 30 95 97 24 73 32 0 189 195 29 129 129 18 98 86 0 0.65 0.621 0.641 0.581 2.518 0.72 0.23 52 313 99 107 -0.621 39 60 41 66 7096 10116 1.625 3.667 0 0
15 5310 25860 90 162 162 33 89 91 22 98 76 0 170 178 28 122 123 18 92 76 0 1.521 1.304 1.184 1.401 2.2 1.557 0.386 52 342 121 129 0.605 73 48 73 56 8424 9230 3.227 3.056 0 0
16 5460 25830 100 95 101 29 91 93 24 32 11 0 132 134 22 120 121 18 35 16 0 0.333 0.714 1.329 1.481 4.479 3.8 0.018 80 392 16 24 -1.585 4 12 10 14 8078 10721 0.333 0.722 -50 0
17 5630 25830 100 101 103 27 88 91 22 33 13 0 127 133 26 117 118 17 35 20 0 1.3 0.938 1.293 1.006 3.819 2.038 0.066 80 412 23 31 0.379 13 10 15 16 8225 10605 0.545 0.882 -50 0
18 5810 25840 100 91 94 26 87 89 20 28 10 0 125 127 21 113 116 18 37 15 0 0.333 0.5 1 1.023 2.603 1.161 0.008 80 448 16 21 -1.585 4 12 7 14 7530 10150 0.25 0.611 -50 0
19 5990 25870 90 349 349 66 85 86 21 100 100 0 300 306 47 119 120 17 100 100 0 1.459 1.412 1.421 1.413 1.275 1.486 0.87 52 365 445 451 0.545 264 181 264 187 18173 15893 12.524 10.941 0 0
20 6160 25850 80 126 127 28 86 87 21 75 42 0 158 157 29 117 117 17 80 61 0 0.976 1.025 1.049 0.9 2.625 1.267 0.168 52 316 81 81 -0.036 40 41 41 40 6599 8149 1.905 2.353 0 0

Total number of rows: 5760

Table truncated, full table size 1034 Kbytes.




Supplementary data files not provided

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