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Sample GSM944 Query DataSets for GSM944
Status Public on Feb 12, 2002
Title SWI4 IP with anti-Swi4, benomyl treated cells (#30), G-array
Sample type RNA
 
Channel 1
Source name swi4 deletion
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
Channel 2
Source name WT
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
 
Description Same as i54swi4, on ORF + intergenic array
ScanAlyze Pro scanning software was used.
Keywords = Chromatin IP
Keywords = Cell-cycle factors
Lot batch = g104swi4
 
Submission date Feb 08, 2002
Last update date Nov 21, 2005
Organization Stanford Microarray Database (SMD)
E-mail(s) array@genome.stanford.edu
Phone 650-498-6012
URL http://genome-www5.stanford.edu/
Department Stanford University, School of Medicine
Street address 300 Pasteur Drive
City Stanford
State/province CA
ZIP/Postal code 94305
Country USA
 
Platform ID GPL49
Series (1)
GSE19 SBF-MBF genomic distribution

Data table header descriptions
ID_REF reference identifier
CH1B_MEAN mean of channel 1 background pixels
CH1B_MEDIAN median of channel 1 background pixels
CH1D_MEAN difference between CH1I_MEAN and CH1B_MEAN
CH2I_MEAN mean of channel 2 signal pixels
CH2D_MEAN difference of CH2I_MEAN and CH2B_MEAN
CH2B_MEAN mean of channel 2 background pixels
CH2B_MEDIAN median of channel 2 background pixels
CH2BN_MEDIAN normalized CH2B_MEDIAN
CH2DN_MEAN normalized CH2D_MEAN
CH2IN_MEAN normalized CH2I_MEAN
CORR simple correlation coefficient of channel 1 and channel 2 pixels
FLAG user defined flag (default=0)
VALUE same as UNF_VALUE but with flagged values removed
PIX_RAT2_MEDIAN
PERGTBCH1I_1SD standard deviation of fraction of pixels greater than CH1B_MEAN
PERGTBCH2I_1SD standard deviation of fraction of pixels greater than CH2B_MEAN
RAT1_MEAN ratio of CH1D_MEAN to CH2D_MEAN
RAT1N_MEAN ratio of CH1DN_MEAN to CH2DN_MEAN
RAT2_MEAN arithmetic mean of ratios of CH2D_MEAN to CH1D_MEAN
RAT2N_MEAN arithmetic mean of ratios of CH2DN_MEAN to CH1DN_MEAN
REGR slope of the simple regression line of channel 2 to channel 1 pixels
TOT_BPIX total number of background pixels
TOT_SPIX total number of signal (spot) pixels
TOP vertical, short-axis spot ellipse minimum pixel coordinate
BOT vertical, short-axis spot ellipse maximum pixel coordinate
LEFT horizontal, long-axis spot ellipse minimum pixel coordinate
RIGHT horizontal, long-axis spot ellipse maximum pixel coordinate
UNF_VALUE aka LOG_RAT2N_MEAN, or log2 of ratio of CH2DN_MEAN and CH1DN_MEAN

Data table
ID_REF CH1B_MEAN CH1B_MEDIAN CH1D_MEAN CH2I_MEAN CH2D_MEAN CH2B_MEAN CH2B_MEDIAN CH2BN_MEDIAN CH2DN_MEAN CH2IN_MEAN CORR FLAG VALUE PIX_RAT2_MEDIAN PERGTBCH1I_1SD PERGTBCH2I_1SD RAT1_MEAN RAT1N_MEAN RAT2_MEAN RAT2N_MEAN REGR TOT_BPIX TOT_SPIX TOP BOT LEFT RIGHT UNF_VALUE
1 39 31 1482 1856 1831 40 25 24 1760 1784 .93 0 .248 1.226 85 83 .809 .842 1.235 1.188 1.182 830 156 71 86 116 131 .248
2 36 32 28 59 32 38 27 25 31 56 .51 0 .147 .899 38 10 .875 .903 1.143 1.107 1.509 614 156 71 86 134 149 .147
3 49 33 813 1104 1076 38 28 26 1035 1061 .86 0 .348 1.324 85 87 .756 .786 1.323 1.273 1.156 639 156 71 86 151 166 .348
4 42 33 27 52 24 40 28 26 24 50 .6 0 -.17 .818 14 8 1.125 1.125 .889 .889 .599 654 156 71 86 169 184 -.17
5 34 33 433 556 529 29 27 25 509 534 .9 0 .233 1.183 94 94 .819 .851 1.222 1.176 1.102 616 156 71 86 186 201 .233
6 35 33 27 65 36 31 29 27 35 62 .71 0 .374 1.174 44 49 .75 .771 1.333 1.296 .856 558 156 71 86 204 219 .374
7 40 35 30 44 30 28 28 .3 .765 0 0 .571 563 156 71 86 221 236
8 93 37 34 3 144 31 29 3 32 .93 .7 0 0 3.936 598 156 71 86 238 253
9 44 36 28 53 28 26 26 .2 .596 0 0 .346 568 156 71 86 256 271
10 39 34 1 40 10 35 30 28 10 38 .19 3.322 .972 1 3 .1 .1 10 10 .369 563 156 71 86 273 288 3.322
11 44 35 3 31 35 31 29 29 .32 .6 1 2 .26 571 156 71 86 291 306
12 40 34 30 36 31 29 28 .09 .727 3 3 .07 676 156 71 86 308 323
13 37 34 109 207 177 33 30 28 171 199 .83 0 .65 1.603 65 88 .616 .637 1.624 1.569 1.29 217 52 73 81 324 332 .65
14 38 34 1117 1621 1590 38 31 29 1529 1558 .88 0 .453 1.408 100 100 .703 .731 1.423 1.369 1.183 478 80 72 83 338 349 .453
15 38 35 1581 2946 2914 38 32 30 2802 2832 .95 0 .826 1.834 96 100 .543 .564 1.843 1.772 1.705 622 120 71 84 355 368 .826
16 42 36 586 834 802 37 32 30 771 801 .83 0 .396 1.231 93 99 .731 .76 1.369 1.316 1.223 529 120 72 84 374 386 .396
17 48 40 2493 3793 3758 43 35 33 3614 3647 .94 0 .536 1.491 100 100 .663 .69 1.507 1.45 1.393 442 80 72 83 392 403 .536
18 45 40 2837 6020 5984 41 36 34 5754 5788 .96 0 1.02 2.161 99 100 .474 .493 2.109 2.028 1.984 515 120 72 84 409 421 1.02
19 53 42 2655 4723 4684 47 39 37 4504 4541 .96 0 .762 1.805 100 100 .567 .589 1.764 1.696 1.724 510 120 72 84 426 438 .762
20 57 41 2143 3432 3393 57 39 37 3263 3300 .94 0 .607 1.617 100 100 .632 .657 1.583 1.523 1.416 452 80 71 82 444 455 .607

Total number of rows: 16128

Table truncated, full table size 1924 Kbytes.




Supplementary data files not provided
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