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Sample GSM955 Query DataSets for GSM955
Status Public on Feb 12, 2002
Title SWI4 3xHA IP with anti-HA, benomyl treated cells
Sample type RNA
 
Channel 1
Source name amplified genomic DNA
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
Channel 2
Source name SWI4 3xHA IP with anti-HA, plus benomyl
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
 
Description ScanAlyze Pro scanning software was used.
Keywords = Chromatin IP
Keywords = Cell-cycle factors
Lot batch = i17swi4
 
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 GPL50
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 53 45 4876 4128 4096 39 32 38 4876 4914 .97 0 0 .84 100 100 1.19 1 .84 1 .809 588 120 80 92 150 162 0
2 53 42 139 175 143 39 32 38 170 208 .96 -100 .858 37 39 .972 .818 1.029 1.223 1.048 697 156 78 93 164 179 .29
3 48 43 2868 2199 2169 34 30 35 2582 2617 .94 0 -.152 .803 100 100 1.322 1.111 .756 .9 .699 359 80 82 92 185 195 -.152
4 46 41 76 90 62 32 28 33 74 107 .86 -100 .796 48 39 1.226 1.027 .816 .974 .745 740 156 78 93 199 214 -.038
5 45 42 121 247 219 29 28 33 261 294 .85 0 1.109 1.743 93 100 .553 .464 1.81 2.157 1.359 354 80 82 92 220 230 1.109
6 46 45 966 704 673 33 31 36 802 838 .95 0 -.268 .699 98 100 1.435 1.204 .697 .83 .66 563 120 79 92 234 247 -.268
7 50 47 844 628 591 39 37 44 703 747 .93 0 -.264 .716 95 100 1.428 1.201 .7 .833 .632 471 120 81 93 253 265 -.264
8 53 48 7631 12485 12447 41 38 45 14818 14863 .96 0 .957 1.6 100 100 .613 .515 1.631 1.942 1.662 574 156 80 94 270 284 .957
9 52 49 42 4 41 38 45 5 50 .23 .912 12 17 .206 646 156 78 93 285 300
10 57 51 44 4 45 40 47 5 52 .16 .865 3 6 .119 674 156 78 93 303 318
11 58 52 48 6 47 42 50 7 57 .15 .9 5 7 .114 656 156 78 93 320 335
12 56 52 4 46 4 45 42 50 4 54 .2 0 .786 16 16 1 1 1 1 .154 635 156 78 93 337 352 0
13 54 51 5 48 7 45 41 48 9 57 .32 .848 .743 13 16 .714 .556 1.4 1.8 .272 634 156 79 94 355 370 .848
14 53 49 8 47 8 44 39 46 9 55 .15 .17 .81 17 23 1 .889 1 1.125 .118 648 156 79 94 372 387 .17
15 53 49 8 48 8 44 40 47 10 57 .12 .322 .826 19 19 1 .8 1 1.25 .36 631 156 79 94 389 404 .322
16 54 50 2 45 4 45 41 48 5 53 .14 1.322 .848 16 16 .5 .4 2 2.5 .127 610 156 79 94 407 422 1.322
17 53 49 4 42 3 44 39 46 4 50 .18 0 .908 12 15 1.333 1 .75 1 .167 599 156 79 94 424 439 0
18 51 48 3 47 7 45 40 47 8 55 .25 1.415 1.15 12 19 .429 .375 2.333 2.667 .233 598 156 79 94 441 456 1.415
19 55 50 3 46 4 48 42 50 4 54 .18 .415 1.28 10 17 .75 .75 1.333 1.333 .2 620 156 79 94 458 473 .415
20 823 63 50 3 837 47 55 4 59 .7 .735 0 0 .717 653 156 79 94 476 491

Total number of rows: 7680

Table truncated, full table size 920 Kbytes.




Supplementary data files not provided
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