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Sample GSM71617 Query DataSets for GSM71617
Status Public on Aug 24, 2005
Title cell cycle-alpha factor, fkh1, fkh2 090min
Sample type RNA
 
Channel 1
Source name Reference Pool
Organism Saccharomyces cerevisiae
Characteristics Reference Pool
Extracted molecule total RNA
Label Cy3
 
Channel 2
Source name 090 min
Organism Saccharomyces cerevisiae
Characteristics 090 min
Extracted molecule total RNA
Label Cy5
 
 
Description Simple annotation: Cell-cycle, Forkheads
Image: http://smd.stanford.edu/MicroArray/gifs/1999-12/480.gif
Data processing VALUE is Log (base 2) of the ratio of the mean of Channel 2 (usually 635 nm) to Channel 1 (usually 532 nm)
 
Submission date Aug 23, 2005
Last update date Sep 22, 2006
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 GPL51
Series (1)
GSE3182 Two yeast forkhead genes regulate the cell cycle and pseudohyphal growth

Data table header descriptions
ID_REF ID_REF
CH1I_MEAN Uncorrected Cy3 mean pixel intensity.; Type: integer; Scale: linear_scale; Channel: Cy3 Channel
CH2I_MEAN Uncorrected Cy3 mean pixel intensity.; Type: integer; Scale: linear_scale; Channel: Cy5 channel
CH1B_MEDIAN Median intensities of background pixels of Cy3.; Type: integer; Scale: linear_scale; Channel: Cy3 Channel
CH2B_MEDIAN Median intensities of background pixels of Cy3.; Type: integer; Scale: linear_scale; Channel: Cy5 channel
CH1D_MEAN The mean feature pixel intensity with the median background subtracted (channel 1).; Type: integer; Scale: linear_scale; Channel: Cy3 Channel
CH2D_MEAN The mean feature pixel intensity with the median background subtracted (channel 2).; Type: integer; Scale: linear_scale; Channel: Cy5 channel
CH1B_MEAN Mean intensities of background pixels of Cy3.; Type: integer; Scale: linear_scale; Background
CH2B_MEAN Mean intensities of background pixels of Cy5.; Type: integer; Scale: linear_scale; Background
PERGTBCH1I_1SD The percentage of feature pixels with intensities more than one standard deviation above the background pixel intensity, at wavelength 532 nm.; Type: integer; Scale: linear_scale
PERGTBCH2I_1SD The percentage of feature pixels with intensities more than one standard deviation above the background pixel intensity, at wavelength 635 nm.; Type: integer; Scale: linear_scale
PIX_RAT2_MEDIAN Contains median of Ch2PI-CH2B/Ch1PI-CH1B where Ch1PI & Ch2PI represent single pixel intensities.; Type: float; Scale: linear_scale
TOT_SPIX Count of the number of pixels in the spot.; Type: integer; Scale: linear_scale
TOT_BPIX Number of background pixels.; Type: integer; Scale: linear_scale
REGR The regression ratio of every pixel in a 2-feature-diameter circle around the center of the feature.; Type: float; Scale: linear_scale
CORR The correlation between channel1 (Cy3) & Channel 2 (Cy5) pixels within the spot, and is a useful quality control parameter. Generally, high values imply better fit & good spot quality.; Type: float; Scale: linear_scale
TOP Box top: int(((centerX - radius) - Xoffset) / pixelSize).; Type: integer; Scale: linear_scale
BOT Box bottom: int(((centerX + radius) - Xoffset) / pixelSize).; Type: integer; Scale: linear_scale
LEFT Box left: int(((centerY - radius) - yoffset) / pixelSize).; Type: integer; Scale: linear_scale
RIGHT Box right: int(((centerY + radius) - yoffset) / pixelSize); Type: integer; Scale: linear_scale
FLAG User defined spot flag (default 0).; Type: integer; Scale: linear_scale
CH2IN_MEAN Normalized value of mean Channel 2 (usually 635 nm) intensity (CH2I_MEAN/Normalization factor).; Type: integer; Scale: linear_scale; Channel: Cy5 channel
CH2BN_MEDIAN Normalized value of median Channel 2 (usually 635 nm) background (CH2B_MEDIAN/Normalization factor).; Type: integer; Scale: linear_scale; Channel: Cy5 channel; Background
CH2DN_MEAN Normalized value of mean Channel 2 (usually 635 nm) intensity with normalized background subtracted (CH2IN_MEAN - CH2BN_MEDIAN).; Type: integer; Scale: linear_scale; Channel: Cy5 channel
RAT2N_MEAN Type: float; Scale: linear_scale
RAT1N_MEAN Ratio of the means of Channel 1 (usually 532 nm) intensity to normalized Channel 2 (usually 635 nm) intensity with median background subtracted (CH1D_MEAN/CH2DN_MEAN). Channel 1/Channel 2 ratio normalized or Green/Red ratio normalized.; Type: float; Scale: linear_scale
VALUE Log (base 2) of the ratio of the mean of Channel 2 (usually 635 nm) to Channel 1 (usually 532 nm) [log (base 2) (RAT2N_MEAN)].; Type: float; Scale: log_base_2

Data table
ID_REF CH1I_MEAN CH2I_MEAN CH1B_MEDIAN CH2B_MEDIAN CH1D_MEAN CH2D_MEAN CH1B_MEAN CH2B_MEAN PERGTBCH1I_1SD PERGTBCH2I_1SD PIX_RAT2_MEDIAN TOT_SPIX TOT_BPIX REGR CORR TOP BOT LEFT RIGHT FLAG CH2IN_MEAN CH2BN_MEDIAN CH2DN_MEAN RAT2N_MEAN RAT1N_MEAN VALUE
1 279 327 53 53 226 274 59 54 68 72 1.155 177 1119 .9 .82 132 147 145 160 0 414 67 347 1.535 .651 .619
2 83 70 54 53 29 17 60 54 39 27 .633 177 883 .357 .48 132 147 162 177 0 89 67 22 .759 1.318 -.399
3 466 398 51 49 415 349 56 52 59 67 .788 177 896 .707 .822 132 147 179 194 0 504 62 442 1.065 .939 .091
4 87 82 50 48 37 34 55 51 33 28 .833 177 896 .563 .628 132 147 197 212 0 104 61 43 1.162 .86 .217
5 226 191 52 49 174 142 59 50 54 53 .811 177 896 .704 .812 132 147 214 229 0 242 62 180 1.034 .967 .049
6 60 60 53 51 7 9 59 53 25 22 .864 177 896 .193 .215 132 147 232 247 0 76 65 11 1.571 .636 .652
7 63 58 53 51 10 7 59 54 30 21 .684 177 896 .082 .122 132 147 249 264 0 73 65 8 .8 1.25 -.322
8 54 53 54 53 null null 60 55 19 13 .6 177 886 .064 .097 132 147 267 282 0 67 67 null null null null
9 61 56 53 55 8 1 59 57 29 15 .643 177 905 .049 .077 132 147 284 299 0 71 70 1 .125 8 -3
10 63 61 53 56 10 5 60 58 27 15 .841 177 919 -.091 -.149 132 147 302 317 0 77 71 6 .6 1.667 -.737
11 67 58 55 55 12 3 60 58 31 18 .511 177 928 .035 .056 132 147 319 334 0 73 70 3 .25 4 -2
12 64 62 57 55 7 7 63 58 22 19 .577 177 928 -.003 -.004 132 147 337 352 0 78 70 8 1.143 .875 .193
13 128 70 59 56 69 14 65 60 31 17 .5 177 928 .133 .94 132 147 354 369 0 89 71 18 .261 3.833 -1.939
14 69 59 63 56 6 3 68 59 24 14 .691 177 928 .094 .136 132 147 372 387 0 75 71 4 .667 1.5 -.585
15 74 66 61 54 13 12 67 56 26 27 .793 177 928 .088 .127 132 147 389 404 0 84 68 16 1.231 .813 .3
16 52 53 57 52 null 1 63 55 18 15 .704 177 928 -.031 -.044 132 147 407 422 0 67 66 1 null null null
17 53 54 54 51 null 3 60 54 18 16 .682 177 928 .007 .008 132 147 424 439 0 68 65 3 null null null
18 57 58 53 53 4 5 60 56 23 20 .93 177 928 -.082 -.112 132 147 442 457 0 73 67 6 1.5 .667 .585
19 52 50 50 51 2 null 57 54 21 14 1 177 928 .159 .181 132 147 459 474 0 63 65 null null null null
20 51 49 48 50 3 null 53 52 24 12 1.067 177 896 -.013 -.019 133 148 477 492 0 62 63 null null null null

Total number of rows: 9216

Table truncated, full table size 967 Kbytes.




Supplementary data files not provided
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