NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM950 Query DataSets for GSM950
Status Public on Feb 12, 2002
Title SWI4 IP with anti-HA, alpha-factor treated cells
Sample type RNA
 
Channel 1
Source name amplified genomic DNA
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
Channel 2
Source name SWI4 IP with anti-HA, plus alpha-factor
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
 
Description ScanAlyze Pro scanning software was used.
Keywords = Chromatin IP
Keywords = Cell-cycle factors
Lot batch = i22swi4
 
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 57 47 3508 3271 3236 43 35 32 2927 2958 .94 0 -.261 .911 100 100 1.084 1.199 .922 .834 .859 626 120 58 70 150 162 -.261
2 86 65 95 132 82 70 50 45 74 119 .73 0 -.357 .786 28 28 1.159 1.281 .863 .781 .589 604 120 57 70 166 179 -.357
3 63 52 2081 1884 1841 51 43 39 1665 1704 .89 0 -.322 .947 100 100 1.13 1.25 .885 .8 .777 404 80 60 70 186 196 -.322
4 66 55 163 205 158 58 47 43 143 185 .83 0 -.19 .985 36 33 1.032 1.141 .969 .877 .911 654 120 57 70 201 214 -.19
5 70 53 532 686 637 62 49 44 576 620 .95 0 .115 1.222 96 96 .835 .923 1.197 1.083 1.103 326 52 60 69 220 229 .115
6 66 51 749 657 619 49 38 34 560 594 .93 0 -.42 .825 95 95 1.21 1.338 .826 .747 .815 558 120 60 72 237 249 -.42
7 59 49 759 657 624 44 33 30 564 594 .91 0 -.427 .841 100 100 1.216 1.345 .822 .744 .742 420 80 59 70 254 265 -.427
8 51 45 4114 7100 7066 39 34 31 6391 6422 .95 0 .635 1.685 100 100 .582 .644 1.718 1.553 1.681 578 156 59 73 271 285 .635
9 58 51 33 49 45 41 -11 30 .51 1 8 4 .546 647 156 56 71 286 301
10 61 54 39 85 37 53 48 43 33 77 .69 -.221 1.037 39 39 1.054 1.165 .949 .858 .737 678 156 56 71 303 318 -.221
11 60 52 36 78 36 49 42 38 33 71 .75 -.145 .933 36 41 1 1.106 1 .904 .684 645 156 56 71 321 336 -.145
12 54 48 38 1 43 37 33 1 34 .32 .892 8 5 .262 628 156 56 71 338 353
13 49 43 11 48 14 37 34 31 13 43 .26 .203 1.069 20 30 .786 .869 1.273 1.151 .27 638 156 56 71 355 370 .203
14 53 45 7 39 4 42 35 32 4 35 .52 -.952 .75 16 8 1.75 1.935 .571 .517 .429 656 156 56 71 372 387 -.952
15 64 54 36 52 43 39 -6 33 .63 1.122 3 3 .636 639 156 56 71 390 405
16 64 55 45 1 53 44 40 1 41 .52 1 5 5 .414 597 156 56 71 407 422
17 59 49 1 39 49 42 38 -3 35 .45 .953 7 3 .419 618 156 56 71 424 439
18 53 45 8 43 6 43 37 33 5 39 .49 -.56 .873 8 8 1.333 1.474 .75 .678 .413 627 156 56 71 441 456 -.56
19 71 52 7 53 11 61 42 38 10 48 .69 .507 .75 1 0 .636 .704 1.571 1.421 .57 639 156 56 71 459 474 .507
20 87 60 14 65 13 80 52 47 12 59 .61 -.252 .935 1 1 1.077 1.191 .929 .84 .378 635 156 56 71 476 491 -.252

Total number of rows: 7680

Table truncated, full table size 919 Kbytes.




Supplementary data files not provided
| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap