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Sample GSM459 Query DataSets for GSM459
Status Public on Jul 24, 2001
Title REF-vjr (red, channel 2) vs bn2 #1 L3 (green, channel 1)
Sample type RNA
 
Channel 1
Source name bn2 #1 L3 (green, channel 1)
Organism Caenorhabditis elegans
Extracted molecule total RNA
 
Channel 2
Source name REF-vjr (red, channel 2)
Organism Caenorhabditis elegans
Extracted molecule total RNA
 
 
Description Category: germline
Subcategory: L3
Experimental details: synchronized glp-4(bn2) L3 mRNA (batch 1) 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_11029
 
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
1 406 405 129 123 58 71 65 47 42 88 .548 0 -1.635 .415 54 44 2.224 3.106 .45 .322 .247 976 185 50 65 1773 1788 -1.635
2 433 427 1 121 11 118 110 79 8 87 .126 -100 .971 21 23 .091 .127 11 7.876 .077 596 103 951 962 1785 1796 2.977
3 429 429 57 103 38 69 65 47 27 74 .453 0 -1.067 .414 37 41 1.5 2.095 .667 .477 .202 574 137 70 83 1774 1787 -1.067
4 469 442 35 162 53 129 109 78 38 116 .664 0 .117 .722 14 20 .66 .922 1.514 1.084 .4 523 103 971 982 1785 1796 .117
5 410 411 41 80 14 69 66 47 10 57 .332 0 -2.032 .375 32 24 2.929 4.09 .341 .244 .135 572 137 91 104 1774 1787 -2.032
6 457 430 20 151 44 128 107 77 32 108 .382 0 .656 .656 50 13 .455 .635 2.2 1.575 .253 545 103 992 1003 1787 1798 .656
7 397 396 64 224 154 76 70 50 110 160 .592 0 .785 1.452 33 68 .416 .58 2.406 1.723 .663 746 185 109 124 1774 1789 .785
8 416 410 93 347 244 108 103 74 175 248 .529 0 .91 2.162 50 82 .381 .532 2.624 1.879 .82 674 137 1011 1024 1787 1800 .91
9 401 399 654 313 231 88 82 59 165 224 .865 0 -1.983 .388 77 72 2.831 3.954 .353 .253 .308 718 185 131 146 1774 1789 -1.983
10 418 413 443 162 68 101 94 67 49 116 .498 0 -3.186 .181 75 53 6.515 9.099 .153 .11 .105 522 137 1032 1045 1786 1799 -3.186
11 398 399 133 132 38 100 94 67 27 95 .553 -100 .391 45 28 3.5 4.888 .286 .205 .193 497 137 152 165 1775 1788 -2.289
12 414 412 738 441 343 109 98 70 246 316 .91 0 -1.587 .489 75 74 2.152 3.005 .465 .333 .376 601 185 1051 1066 1786 1801 -1.587
13 406 397 753 1962 1851 122 111 79 1325 1405 .928 0 .816 2.537 73 77 .407 .568 2.458 1.76 2.053 968 198 500 516 1780 1796 .816
14 457 433 143 1217 1099 159 118 84 787 871 .754 0 2.46 8.282 15 67 .13 .182 7.685 5.503 3.461 1024 185 1399 1414 1787 1802 2.46
15 417 408 3020 4961 4861 110 100 72 3480 3552 .961 0 .205 1.556 71 74 .621 .868 1.61 1.152 1.52 842 250 518 536 1780 1798 .205
16 446 437 146 219 107 125 112 80 77 157 .731 0 -.93 .736 40 43 1.364 1.906 .733 .525 1.008 651 137 1423 1436 1790 1803 -.93
17 419 415 269 3395 3299 105 96 69 2362 2431 .763 0 3.134 10.18 57 85 .082 .114 12.264 8.781 6.702 743 231 540 557 1780 1797 3.134
18 490 441 56 542 417 135 125 89 299 388 .949 0 2.415 3.1 0 74 .134 .188 7.446 5.332 .742 734 185 1439 1454 1789 1804 2.415
19 416 412 361 550 455 103 95 68 326 394 .843 0 -.148 1.184 78 95 .793 1.108 1.26 .902 .854 876 287 558 577 1780 1799 -.148
20 448 441 804 2760 2632 137 128 92 1884 1976 .92 0 1.229 3.266 75 84 .305 .427 3.274 2.344 2.773 611 185 1459 1474 1788 1803 1.229

Total number of rows: 13323

Table truncated, full table size 1624 Kbytes.




Supplementary data files not provided

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