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Sample GSM959 Query DataSets for GSM959
Status Public on Feb 12, 2002
Title SWI6 IP with anti-Swi6, unsynchronized cells (#A38), genomic reference
Sample type RNA
 
Channel 1
Source name amplified genomic DNA
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
Channel 2
Source name SWI6 IP
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
 
Description ScanAlyze Pro scanning software was used.
Keywords = Chromatin IP
Keywords = Cell-cycle factors
Lot batch = i74swi6
 
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 23 20 1527 1260 1241 30 19 23 1552 1575 .91 0 .023 .816 100 100 1.23 .984 .813 1.016 .79 299 52 60 69 82 91 .023
2 24 18 21 58 39 37 19 23 49 72 .27 0 1.222 1 28 13 .538 .429 1.857 2.333 .696 576 120 58 70 95 107 1.222
3 26 17 1341 1049 1030 35 19 23 1288 1311 .73 0 -.058 .833 100 100 1.302 1.041 .768 .96 .527 329 52 60 69 117 126 -.058
4 23 11 32 67 53 23 14 17 66 83 .48 0 1.044 1 11 42 .604 .485 1.656 2.063 .825 577 120 58 70 130 142 1.044
5 23 12 79 384 367 32 17 21 459 480 .65 0 2.539 4.481 92 100 .215 .172 4.646 5.81 2.948 455 80 60 70 152 162 2.539
6 36 18 263 800 776 35 24 30 970 1000 .88 0 1.883 2.746 97 100 .339 .271 2.951 3.688 2.648 434 80 60 70 169 179 1.883
7 26 13 258 706 690 27 16 20 862 882 .89 0 1.74 2.667 98 100 .374 .299 2.674 3.341 2.462 500 80 59 70 185 196 1.74
8 19 10 5319 10709 10696 23 13 16 13370 13386 .91 0 1.33 1.961 100 100 .497 .398 2.011 2.514 1.855 413 80 59 70 202 213 1.33
9 51 10 48 31 18 23 13 16 22 38 .08 -1.126 1.5 3 8 2.667 2.182 .375 .458 .026 571 156 57 71 216 230 -1.126
10 47 9 32 17 5 22 12 15 6 21 .61 -2.415 1.5 1 3 6.4 5.333 .156 .188 .071 527 156 57 71 233 247 -2.415
11 13 8 2 18 7 21 11 13 9 22 .08 2.17 1.5 0 2 .286 .222 3.5 4.5 .153 540 156 58 72 250 264 2.17
12 13 7 12 20 9 26 11 13 12 25 0 0 1 3 3 1.333 1 .75 1 539 156 58 72 267 281 0
13 29 8 1 12 26 12 15 15 .05 1.45 0 0 .062 563 156 58 72 285 299
14 11 7 1 21 10 24 11 13 13 26 0 3.7 1.5 0 3 .1 .077 10 13 595 156 58 72 302 316 3.7
15 12 7 1 14 2 30 12 15 2 17 .03 1 1.5 1 0 .5 .5 2 2 .085 615 156 58 72 319 333 1
16 12 7 2 15 3 29 12 15 3 18 .18 .585 1.667 1 1 .667 .667 1.5 1.5 .999 592 156 58 72 337 351 .585
17 8 5 5 18 8 28 10 12 10 22 .24 1 1.5 5 2 .625 .5 1.6 2 .351 581 156 58 72 354 368 1
18 4 2 1 6 17 6 7 7 .15 1.5 3 0 .226 582 156 58 72 371 385
19 3 1 5 7 5 6 6 .14 2 0 0 .224 509 156 58 72 389 403
20 4 1 1 5 19 6 7 6 .13 3 0 0 2.309 480 156 58 72 406 420

Total number of rows: 7680

Table truncated, full table size 903 Kbytes.




Supplementary data files not provided

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