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Sample GSM28841 Query DataSets for GSM28841
Status Public on Jun 13, 2005
Title brr1D_5
Sample type RNA
 
Channel 1
Source name BY4741 (wt) @ 26 deg
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
Channel 2
Source name BY4741 (brr1D) @ 26 deg
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
 
Description Reference and mutant strains grown at 26oC to an OD of 0.5-0.6 . RNA extracted.
Empty cells (no data) are represented by the value -10000
 
Submission date Aug 12, 2004
Last update date Jun 13, 2005
Contact name Todd A Burckin
E-mail(s) burckin@biology.ucsc.edu
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 GPL1408
Series (1)
GSE1684 Exploring functional relationships between components of the gene expression machinery

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
F3 Median n/a
F3 Mean n/a
F3 SD n/a
B3 Median n/a
B3 Mean n/a
B3 SD n/a
% > B3+1SD n/a
% > B3+2SD n/a
F3 % Sat. n/a
F4 Median n/a
F4 Mean n/a
F4 SD n/a
B4 Median n/a
B4 Mean n/a
B4 SD n/a
% > B4+1SD
% > B4+2SD n/a
F4 % Sat. n/a
Ratio of Medians (635/532) Ratio of medians (Ch2/Ch1)
Ratio of Means (635/532) Ratio of means (Ch2/Ch1)
Median of Ratios (635/532) Median of ratios
Mean of Ratios (635/532) Mean of ratios
Ratios SD (635/532) Ratio standard deviation
Rgn Ratio (635/532) Regression ratio
Rgn R? (635/532) Regression square ratio
Ratio of Medians (Ratio/2) n/a
Ratio of Means (Ratio/2) n/a
Median of Ratios (Ratio/2) n/a
Mean of Ratios (Ratio/2) n/a
Ratios SD (Ratio/2) n/a
Rgn Ratio (Ratio/2) n/a
Rgn R? (Ratio/2) n/a
Ratio of Medians (Ratio/3) n/a
Ratio of Means (Ratio/3) n/a
Median of Ratios (Ratio/3) n/a
Mean of Ratios (Ratio/3) n/a
Ratios SD (Ratio/3) n/a
Rgn Ratio (Ratio/3) n/a
Rgn R? (Ratio/3) n/a
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) (base 2)
Log Ratio (Ratio/2) n/a
Log Ratio (Ratio/3) n/a
F635 Median - B635 Channel 2 (Cy5/635) background subtracted median feature intensity
F532 Median - B532 Channel 1 (Cy3/532) background subtracted median feature intensity
F3 Median - B3 n/a
F4 Median - B4 n/a
F635 Mean - B635 Channel 2 (Cy5/635) background subtracted mean feature intensity
F532 Mean - B532 Channel 1 (Cy3/532) background subtracted mean feature intensity
F3 Mean - B3
F4 Mean - B4
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. F3 Median F3 Mean F3 SD B3 Median B3 Mean B3 SD % > B3+1SD % > B3+2SD F3 % Sat. F4 Median F4 Mean F4 SD B4 Median B4 Mean B4 SD % > B4+1SD % > B4+2SD F4 % 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) Ratio of Medians (Ratio/2) Ratio of Means (Ratio/2) Median of Ratios (Ratio/2) Mean of Ratios (Ratio/2) Ratios SD (Ratio/2) Rgn Ratio (Ratio/2) Rgn R? (Ratio/2) Ratio of Medians (Ratio/3) Ratio of Means (Ratio/3) Median of Ratios (Ratio/3) Mean of Ratios (Ratio/3) Ratios SD (Ratio/3) Rgn Ratio (Ratio/3) Rgn R? (Ratio/3) F Pixels B Pixels Sum of Medians Sum of Means VALUE Log Ratio (Ratio/2) Log Ratio (Ratio/3) F635 Median - B635 F532 Median - B532 F3 Median - B3 F4 Median - B4 F635 Mean - B635 F532 Mean - B532 F3 Mean - B3 F4 Mean - B4 Flags Normalize
1 890 24970 110 38 44 19 35 36 5 36 27 0 1364 1606 592 33 39 56 100 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.002 0.006 0.02 0.025 2.105 0.003 0.051 0 0 0 0 0 0 0 0 0 0 0 0 0 0 80 576 1334 1582 -8.793 -10000 -10000 3 1331 0 0 9 1573 0 0 0 0
2 1110 24980 90 44 51 20 35 35 5 57 44 0 65 71 26 32 33 4 96 96 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.273 0.41 0.467 0.371 2.95 0.481 0.449 0 0 0 0 0 0 0 0 0 0 0 0 0 0 52 408 42 55 -1.874 -10000 -10000 9 33 0 0 16 39 0 0 -50 0
3 1310 24970 120 2492 2430 702 35 36 6 100 100 0 2519 2425 785 32 33 4 100 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.988 1.001 1.016 1.033 1.369 0.998 0.949 0 0 0 0 0 0 0 0 0 0 0 0 0 0 120 686 4944 4788 -0.018 -10000 -10000 2457 2487 0 0 2395 2393 0 0 0 0
4 1520 24960 150 36 68 147 36 39 65 10 3 0 33 64 163 32 34 32 10 8 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 1.333 1.391 2.333 1.219 0.792 0 0 0 0 0 0 0 0 0 0 0 0 0 0 156 920 1 64 -10000 -10000 0 1 0 0 32 32 0 0 -50 0
5 1720 24970 120 144 160 84 36 41 81 57 32 0 150 160 87 32 34 40 85 60 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.915 0.969 0.952 1.007 1.595 1.403 0.8 0 0 0 0 0 0 0 0 0 0 0 0 0 0 120 593 226 252 -0.128 -10000 -10000 108 118 0 0 124 128 0 0 -100 0
6 1910 24970 120 70 76 27 35 36 5 97 93 0 66 74 29 33 33 5 94 84 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1.061 1 1.054 1.077 1.839 0.953 0.827 0 0 0 0 0 0 0 0 0 0 0 0 0 0 120 628 68 82 0.085 -10000 -10000 35 33 0 0 41 41 0 0 0 0
7 2110 24970 110 62 66 18 36 37 26 47 10 0 64 69 23 33 34 7 100 92 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.839 0.833 0.841 0.814 1.717 2.436 0.332 0 0 0 0 0 0 0 0 0 0 0 0 0 0 80 548 57 66 -0.254 -10000 -10000 26 31 0 0 30 36 0 0 0 0
8 2320 24960 150 37 47 30 36 38 28 10 7 0 34 42 26 33 34 7 23 15 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 1.222 1 1.197 2.916 2.506 0.436 0 0 0 0 0 0 0 0 0 0 0 0 0 0 156 925 2 20 0 -10000 -10000 1 1 0 0 11 9 0 0 -50 0
9 2520 24950 120 267 263 68 35 37 28 98 98 0 127 124 31 32 33 6 98 97 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2.442 2.478 2.506 2.548 1.444 2.546 0.883 0 0 0 0 0 0 0 0 0 0 0 0 0 0 120 580 327 320 1.288 -10000 -10000 232 95 0 0 228 92 0 0 0 0
10 2700 24960 120 4805 4844 1851 35 37 28 100 100 0 6243 6349 2596 32 33 6 100 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.768 0.761 0.773 0.803 1.414 0.75 0.954 0 0 0 0 0 0 0 0 0 0 0 0 0 0 120 625 10981 11126 -0.381 -10000 -10000 4770 6211 0 0 4809 6317 0 0 0 0
11 2920 24950 130 764 811 294 35 38 44 100 99 0 97 100 27 31 34 58 63 6 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 11.045 11.246 11.922 11.607 1.595 12.261 0.798 0 0 0 0 0 0 0 0 0 0 0 0 0 0 120 732 795 845 3.465 -10000 -10000 729 66 0 0 776 69 0 0 0 0
12 3120 24960 150 37 81 188 34 36 43 14 10 0 32 91 281 31 34 52 14 9 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0.783 1 1.102 2.72 0.672 0.822 0 0 0 0 0 0 0 0 0 0 0 0 0 0 156 873 4 107 1.585 -10000 -10000 3 1 0 0 47 60 0 0 -50 0
13 3320 24950 150 36 48 46 33 35 42 8 4 0 32 48 85 31 33 52 7 3 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0.882 1.409 1.391 2.922 0.723 0.857 0 0 0 0 0 0 0 0 0 0 0 0 0 0 156 891 4 32 1.585 -10000 -10000 3 1 0 0 15 17 0 0 -50 0
14 3500 24960 110 57 60 12 33 34 5 100 97 0 58 59 12 31 31 4 100 97 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.889 0.964 0.945 0.959 1.715 0.936 0.645 0 0 0 0 0 0 0 0 0 0 0 0 0 0 80 532 51 55 -0.17 -10000 -10000 24 27 0 0 27 28 0 0 0 0
15 3710 24960 120 465 450 157 33 34 5 99 99 0 178 176 56 30 31 4 100 98 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2.919 2.856 2.838 2.905 1.54 2.907 0.939 0 0 0 0 0 0 0 0 0 0 0 0 0 0 120 695 580 563 1.545 -10000 -10000 432 148 0 0 417 146 0 0 0 0
16 3910 24960 110 86 87 16 33 33 5 100 100 0 74 74 16 30 30 4 100 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1.205 1.227 1.215 1.244 1.428 1.217 0.827 0 0 0 0 0 0 0 0 0 0 0 0 0 0 80 562 97 98 0.268 -10000 -10000 53 44 0 0 54 44 0 0 0 0
17 4110 24960 110 86 85 17 33 34 9 100 97 0 73 73 12 30 30 5 100 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1.233 1.209 1.233 1.174 1.407 1.325 0.774 0 0 0 0 0 0 0 0 0 0 0 0 0 0 80 586 96 95 0.302 -10000 -10000 53 43 0 0 52 43 0 0 -50 0
18 4320 24960 110 67 66 14 33 33 5 97 90 0 57 59 13 30 31 9 96 73 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1.259 1.138 1.141 1.136 1.821 1.193 0.661 0 0 0 0 0 0 0 0 0 0 0 0 0 0 80 562 61 62 0.333 -10000 -10000 34 27 0 0 33 29 0 0 -50 0
19 4500 24960 110 48 50 10 33 33 4 97 81 0 46 49 11 30 30 4 95 83 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.938 0.895 0.878 0.917 2.049 0.978 0.546 0 0 0 0 0 0 0 0 0 0 0 0 0 0 80 570 31 36 -0.093 -10000 -10000 15 16 0 0 17 19 0 0 -50 0
20 4720 24960 120 50 52 12 32 33 5 90 78 0 44 46 11 30 30 4 85 71 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1.286 1.25 1.4 1.411 2.49 1.052 0.498 0 0 0 0 0 0 0 0 0 0 0 0 0 0 120 736 32 36 0.363 -10000 -10000 18 14 0 0 20 16 0 0 -50 0

Total number of rows: 6400

Table truncated, full table size 1535 Kbytes.




Supplementary data files not provided
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