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Sample GSM949 Query DataSets for GSM949
Status Public on Feb 12, 2002
Title SWI4 IP with anti-Swi4, unsynchronized cells (#28)
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 ScanAlyze Pro scanning software was used.
Keywords = Chromatin IP
Keywords = Cell-cycle factors
Lot batch = i14swi4
 
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 51 48 3363 4054 4028 31 26 30 4683 4713 .96 0 .478 1.143 96 95 .835 .718 1.198 1.393 1.147 1083 208 51 67 95 111 .478
2 54 48 129 171 143 30 28 32 166 198 .84 0 .364 1.037 96 100 .902 .777 1.109 1.287 .837 322 52 54 63 116 125 .364
3 55 50 4009 4718 4691 33 27 31 5455 5486 .95 0 .444 1.183 100 100 .855 .735 1.17 1.361 1.102 377 80 54 64 134 144 .444
4 57 48 61 79 54 30 25 29 62 91 .84 -100 .845 15 24 1.13 .984 .885 1.016 .438 827 208 50 66 148 164 .023
5 51 48 827 490 466 27 24 27 542 569 .91 0 -.61 .543 100 100 1.775 1.526 .563 .655 .497 336 80 54 64 169 179 -.61
6 53 50 1443 1426 1400 28 26 30 1628 1658 .95 0 .174 .979 100 100 1.031 .886 .97 1.128 .937 447 120 53 65 184 196 .174
7 52 49 1476 1507 1480 30 27 31 1721 1752 .96 0 .222 1 100 100 .997 .858 1.003 1.166 .972 440 120 52 64 201 213 .222
8 56 52 9035 14790 14762 37 28 32 17165 17197 .98 0 .926 1.64 100 100 .612 .526 1.634 1.9 1.674 528 156 51 66 217 232 .926
9 56 53 2 33 6 35 27 31 7 38 .32 1.807 .625 14 1 .333 .286 3 3.5 .435 671 208 49 65 234 250 1.807
10 55 52 7 35 6 33 29 33 7 40 .32 0 .849 21 10 1.167 1 .857 1 .259 679 208 49 65 251 267 0
11 112 53 29 85 31 36 33 .98 .667 0 0 .93 660 208 49 65 269 285
12 114 55 33 2 86 31 36 2 38 .97 .745 0 0 .716 650 208 49 65 286 302
13 103 55 15 40 8 74 32 37 9 46 .53 -.737 .769 0 0 1.875 1.667 .533 .6 .208 693 208 49 65 303 319 -.737
14 59 55 5 35 2 38 33 38 2 40 .38 -1.322 .727 19 4 2.5 2.5 .4 .4 .265 677 208 49 65 320 336 -1.322
15 60 55 7 41 8 38 33 38 9 47 .29 .363 1 13 10 .875 .778 1.143 1.286 .416 664 208 48 64 338 354 .363
16 63 57 3 49 15 39 34 39 17 56 .39 2.503 .824 3 12 .2 .176 5 5.667 .92 663 208 48 64 355 371 2.503
17 58 54 2 36 4 36 32 37 4 41 .36 1 .803 4 6 .5 .5 2 2 .283 641 208 48 64 372 388 1
18 56 53 4 35 4 35 31 36 4 40 .25 0 .944 14 10 1 1 1 1 .221 655 208 48 64 389 405 0
19 56 54 29 35 32 37 33 .24 .5 8 3 .173 658 208 48 64 406 422
20 62 58 35 3 38 32 37 3 40 .19 .722 4 8 .159 681 208 48 64 424 440

Total number of rows: 7680

Table truncated, full table size 928 Kbytes.




Supplementary data files not provided
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