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Sample GSM71619 Query DataSets for GSM71619
Status Public on Aug 24, 2005
Title cell cycle-alpha factor, fkh1, fkh2 150min
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 150 min
Organism Saccharomyces cerevisiae
Characteristics 150 min
Extracted molecule total RNA
Label Cy5
 
 
Description Simple annotation: Cell-cycle, Forkheads
Image: http://smd.stanford.edu/MicroArray/gifs/1999-12/474.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
1 421 264 84 52 337 212 96 55 66 75 .648 177 1119 .46 .872 140 155 78 93 0 660 130 530 1.573 .636 .653
2 161 80 82 49 79 31 95 52 47 37 .475 177 928 .199 .539 139 154 95 110 0 200 123 77 .975 1.026 -.037
3 886 443 83 48 803 395 97 49 63 62 .466 177 928 .436 .854 139 154 113 128 0 1108 120 988 1.23 .813 .299
4 123 54 83 44 40 10 97 48 20 15 .391 177 928 .423 .81 139 154 130 145 0 135 110 25 .625 1.6 -.678
5 666 319 82 43 584 276 99 49 66 60 .467 177 928 .449 .889 139 154 148 163 0 798 108 690 1.182 .846 .241
6 244 118 87 47 157 71 102 52 38 29 .414 177 906 .381 .814 139 154 165 180 0 295 118 177 1.127 .887 .173
7 89 48 87 49 2 null 101 51 17 10 .412 177 896 .113 .323 139 154 183 198 0 120 123 null null null null
8 103 52 82 48 21 4 96 49 25 12 .381 177 896 .121 .361 139 154 200 215 0 130 120 10 .476 2.1 -1.07
9 91 47 86 48 5 null 126 75 18 11 .455 177 909 .017 .042 139 154 218 233 0 118 120 null null null null
10 88 50 92 48 null 2 141 80 12 11 .485 177 896 .053 .15 139 154 236 251 0 125 120 5 null null null
11 92 49 93 49 null null 128 66 12 11 .5 177 896 .123 .328 139 154 253 268 0 123 123 null null null null
12 100 50 94 49 6 1 160 77 17 15 .455 177 906 .072 .211 139 154 271 286 0 125 123 2 .333 3 -1.585
13 92 48 95 49 null null 143 68 11 9 .478 177 896 .057 .159 139 154 288 303 0 120 123 null null null null
14 108 56 94 51 14 5 116 60 24 14 .255 177 928 .041 .101 138 153 306 321 0 140 128 12 .857 1.167 -.222
15 114 55 96 50 18 5 123 62 24 15 .279 177 928 .138 .418 138 153 323 338 0 138 125 13 .722 1.385 -.469
16 124 50 89 47 35 3 124 54 21 11 .296 177 941 .127 .892 138 153 341 356 0 125 118 7 .2 5 -2.322
17 145 58 85 45 60 13 114 49 25 19 .333 177 918 .165 .843 138 153 359 374 0 145 113 32 .533 1.875 -.907
18 94 45 80 43 14 2 95 47 23 21 .322 177 906 .146 .381 138 153 376 391 0 113 108 5 .357 2.8 -1.485
19 110 52 77 43 33 9 99 49 34 23 .519 177 906 .147 .348 138 153 394 409 0 130 108 22 .667 1.5 -.585
20 107 55 86 45 21 10 112 63 22 18 .427 177 896 .278 .645 138 153 411 426 0 138 113 25 1.19 .84 .252

Total number of rows: 9216

Table truncated, full table size 1009 Kbytes.




Supplementary data files not provided
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