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Sample GSM440 Query DataSets for GSM440
Status Public on Jul 24, 2001
Title vjr N2 mixed control (red, channel 2) vs bn2-3 T4 (green, channel 1)
Sample type RNA
 
Channel 1
Source name bn2-3 T4 (green, channel 1)
Organism Caenorhabditis elegans
Extracted molecule total RNA
 
Channel 2
Source name vjr N2 mixed control (red, channel 2)
Organism Caenorhabditis elegans
Extracted molecule total RNA
 
 
Description Category: germline
Subcategory: adult
Experimental details: synchronized glp-4(bn2) young adult mRNA (batch 3) was hybridized against the vjr reference mRNA pool to be used for the wild type to no germ line (glp-4) comparisons
Scanning Software: Axon GenePix
Software version: unknown
Scanning parameters:
Lot batch = rosetta_10985
 
Submission date Jul 24, 2001
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 GPL14
Series (1)
GSE5 Global profile of germline gene expression in C. elegans

Data table header descriptions
ID_REF
CH1B_MEAN mean channel 1 background
CH1B_MEDIAN median channel 1 background
CH1D_MEAN difference between CH1I_MEAN and CH1B_MEAN
CH2I_MEAN mean channel 2 signal
CH2D_MEAN difference of CH2I_MEAN and CH2B_MEAN
CH2B_MEAN mean of channel 2 background
CH2B_MEDIAN median of channel 2 background
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 ratio of CH2D_MEAN to CH1D_MEAN
RAT2N_MEAN ratio of CH2DN_MEAN and 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
1 560 547 397 861 605 276 256 155 367 522 .577 0 -.115 .965 72 70 .656 1.083 1.524 .924 1.089 781 137 47 60 1743 1756 -.115
2 481 471 31 480 107 387 373 226 65 291 .084 -100 1.074 22 34 .29 .478 3.452 2.092 .094 797 137 945 958 1752 1765 1.065
3 575 565 120 623 362 277 261 158 219 378 .523 0 .87 1.305 30 53 .331 .547 3.017 1.828 1.019 649 137 67 80 1743 1756 .87
4 492 482 8 450 88 391 362 219 53 273 0 0 2.737 1.364 18 28 .091 .15 11 6.667 636 137 965 978 1752 1765 2.737
5 556 552 23 453 206 273 247 150 125 275 .032 0 2.44 1.577 22 40 .112 .184 8.957 5.428 .038 592 137 87 100 1743 1756 2.44
6 503 487 47 530 157 395 373 226 95 321 .114 0 1.018 1.129 28 41 .299 .494 3.34 2.024 .147 662 137 985 998 1754 1767 1.018
7 549 544 179 941 693 268 248 150 420 570 .597 0 1.23 2.86 38 65 .258 .426 3.872 2.346 1.71 672 185 104 119 1742 1757 1.23
8 473 456 87 677 293 400 384 233 178 410 .239 0 1.029 1.458 34 57 .297 .49 3.368 2.041 .401 671 137 1005 1018 1754 1767 1.029
9 531 518 1108 714 461 268 253 153 279 433 .577 0 -1.988 .356 72 57 2.403 3.966 .416 .252 .342 716 185 122 137 1741 1756 -1.988
10 470 459 387 589 229 378 360 218 139 357 .518 0 -1.479 .557 69 50 1.69 2.788 .592 .359 .483 566 137 1025 1038 1754 1767 -1.479
11 524 518 131 415 176 259 239 145 107 252 .492 -100 .965 34 35 .744 1.228 1.344 .814 .575 561 137 147 160 1743 1756 -.296
12 480 474 358 925 583 359 342 207 353 561 .815 0 -.019 1.491 56 74 .614 1.013 1.628 .987 1.127 596 156 1046 1060 1755 1769 -.019
13 504 493 1003 2402 2167 252 235 142 1313 1456 .926 0 .389 2.032 74 85 .463 .764 2.161 1.309 1.952 970 185 494 509 1750 1765 .389
14 491 461 306 1642 1313 412 329 199 796 995 .711 0 1.379 4.642 39 65 .233 .385 4.291 2.601 2.329 1017 185 1394 1409 1755 1770 1.379
15 496 483 6464 7474 7226 271 248 150 4379 4530 .967 0 -.562 1.151 87 87 .895 1.476 1.118 .678 1.054 690 198 514 530 1749 1765 -.562
16 464 445 185 557 219 363 338 205 133 338 .722 0 -.479 .927 28 30 .845 1.394 1.184 .717 .83 571 137 1417 1430 1756 1769 -.479
17 502 482 302 3486 3224 287 262 159 1954 2113 .79 0 2.694 8.972 48 76 .094 .155 10.675 6.47 6.294 883 250 532 550 1748 1766 2.694
18 458 449 173 962 635 342 327 198 385 583 .626 0 1.154 2.873 44 72 .272 .45 3.671 2.225 1.028 650 185 1433 1448 1755 1770 1.154
19 504 484 732 2136 1857 300 279 169 1125 1295 .901 0 .621 2.446 61 85 .394 .65 2.537 1.538 2.028 957 287 552 571 1748 1767 .621
20 470 457 876 4368 4040 342 328 199 2448 2647 .932 0 1.483 4.429 71 80 .217 .358 4.612 2.795 4.046 574 185 1451 1466 1754 1769 1.483

Total number of rows: 13323

Table truncated, full table size 1664 Kbytes.




Supplementary data files not provided

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