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Sample GSM1007 Query DataSets for GSM1007
Status Public on Feb 12, 2002
Title snf2 minimal medium experiment 2
Sample type RNA
 
Channel 1
Source name snf2 deletion (FY31)
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
Channel 2
Source name Wild-type (FY2)
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
 
Description snf2, minimal (c), FY2 vs. FY31
ScanAlyze version 2.24 scanning software was used.
Keywords = Transcription
Keywords = swi_snf
Lot batch = f60snf2
 
Submission date Feb 08, 2002
Last update date Nov 21, 2005
Organization Stanford Microarray Database (SMD)
E-mail(s) [email protected]
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 GPL65
Series (1)
GSE21 snf/swi mutants of S. cerevisiae.

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 88 81 344 502 399 116 103 114 443 557 .95 0 .365 1.139 70 68 .862 .777 1.16 1.288 1.142 1020 208 64 80 121 137 .365
2 77 75 36 147 51 101 96 106 57 163 .594 0 .663 1.302 41 35 .706 .632 1.417 1.583 1.171 940 208 62 78 139 155 .663
3 93 76 675 895 797 119 98 108 886 994 .906 0 .392 1.165 77 76 .847 .762 1.181 1.313 1.027 861 208 64 80 156 172 .392
4 108 80 79 192 90 127 102 113 100 213 .501 0 .34 1 74 64 .878 .79 1.139 1.266 .644 817 208 64 80 173 189 .34
5 127 81 1165 1524 1420 151 104 115 1578 1693 .739 0 .438 1.197 95 96 .82 .738 1.219 1.355 .885 680 332 63 84 189 210 .438
6 129 79 225 381 283 156 98 108 315 423 .938 -100 1.283 77 79 .795 .714 1.258 1.4 1.229 703 208 65 81 208 224 .485
7 94 74 -5 89 -3 115 92 102 -4 98 .072 0 1 2 2 0 .085 801 208 65 81 225 241
8 73 72 97 8 92 89 98 9 107 .317 0 1.762 5 8 0 .453 777 208 65 81 243 259
9 82 72 2 85 -3 106 88 97 -3 94 .045 0 1.059 2 3 -1.5 .063 765 208 65 81 260 276
10 93 71 -1 79 -3 116 82 91 -4 87 .11 0 1 2 0 0 .116 796 208 65 81 277 293
11 238 72 -8 81 -2 716 83 92 -2 90 .047 0 1.5 1 2 0 .049 792 208 65 81 295 311
12 232 73 -4 80 -6 717 86 95 -7 88 .114 0 .824 4 0 0 .105 776 208 65 81 312 328
13 92 72 -3 78 -3 367 81 90 -4 86 -.004 0 1.571 2 1 0 -.004 770 208 65 81 329 345
14 72 69 1 81 5 80 76 84 6 90 .083 0 2.585 1.571 2 5 .2 .167 5 6 .253 795 208 65 81 346 362 2.585
15 72 68 -1 74 -4 81 78 86 -4 82 .039 0 .595 5 0 0 .036 792 208 65 81 364 380
16 71 66 1 78 83 78 86 86 -.026 0 1.474 4 3 0 -.028 776 208 65 81 381 397
17 72 65 4 80 4 85 76 84 4 88 .133 0 0 1.342 9 7 1 1 1 1 .167 795 208 65 81 398 414 0
18 72 67 -4 67 -9 85 76 84 -10 74 .081 0 .881 2 0 0 .078 814 208 65 81 416 432
19 79 68 -3 79 1 87 78 86 1 87 .062 0 .846 2 4 0 .069 828 208 64 80 433 449
20 77 67 -4 72 -4 83 76 84 -4 80 .112 0 .889 1 1 0 .112 836 208 64 80 450 466

Total number of rows: 8832

Table truncated, full table size 1026 Kbytes.




Supplementary data files not provided
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