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Sample GSM468 Query DataSets for GSM468
Status Public on Jul 24, 2001
Title fem3 #5 (red, channel 2) vs. fem1 #5 (green, channel 1)
Sample type RNA
 
Channel 1
Source name fem1 #5 (green)
Organism Caenorhabditis elegans
Extracted molecule total RNA
 
Channel 2
Source name fem3 #5 (red)
Organism Caenorhabditis elegans
Extracted molecule total RNA
 
 
Description Category: germline
Subcategory: sperm/oocyte
Experimental details: fem-1(hc17) is a temperature sensitive loss-of-function mutation which, at 25 degrees Celsius, produces only oocytes and no sperm. Female soma and germline. fem-3(q23) is a temperature sensitive gain-of-function mutation which, at 25 degrees C, continually produces spermatids. Soma is female, germline is male. Both are fertile at 15 degrees. Growth conditions: Synchronized populations of worms were grown at 15C on15cm enriched peptone agar plates seed with E.Coli. Worms were purified by pouring over a Nytex filter. Total RNA was isolated using the glass bead extraction protocol. Poly(A)+ RNA was isolated using the Invitrogen FastTrack 2.0 kit.
Scanning Software: GenePix
Software version: Pro
Scanning parameters:
Lot batch = rosetta_11433 (expt 1)
 
Submission date Jul 24, 2001
Last update date May 27, 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 aka LOG_RAT2N_MEAN, or log2 of ratio of CH2DN_MEAN and CH1DN_MEAN
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

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
1 55 52 601 351 318 37 33 39 378 417 .84 0 -.669 .563 80 86 1.89 1.59 .529 .629 .445 407 52 81 90 1853 1862
2 60 56 18 67 25 49 42 50 29 79 .14 0 .688 .78 23 28 .72 .621 1.389 1.611 .152 412 52 981 990 1848 1857
3 59 54 298 197 161 59 36 42 192 234 .79 0 -.634 .478 63 32 1.851 1.552 .54 .644 .467 334 52 99 107 1853 1861
4 58 55 53 101 61 50 40 47 73 120 .37 0 .462 .914 40 30 .869 .726 1.151 1.377 .612 340 52 1001 1009 1850 1858
5 65 55 71 78 41 53 37 44 48 92 .56 0 -.565 .641 28 15 1.732 1.479 .577 .676 .413 339 52 118 126 1853 1861
6 59 56 118 131 89 46 42 50 105 155 .57 0 -.168 1.075 50 46 1.326 1.124 .754 .89 .552 420 52 1021 1030 1848 1857
7 60 54 261 149 113 43 36 42 135 177 .67 0 -.951 .438 74 54 2.31 1.933 .433 .517 .377 722 120 138 150 1851 1863
8 62 57 285 172 137 42 35 41 163 204 .77 0 -.806 .428 91 67 2.08 1.748 .481 .572 .5 598 80 1040 1051 1848 1859
9 60 56 155 190 152 42 38 45 181 226 .66 0 .224 .867 63 55 1.02 .856 .981 1.168 .634 515 80 162 172 1852 1862
10 62 60 129 123 85 43 38 45 101 146 .66 0 -.353 .59 53 38 1.518 1.277 .659 .783 .521 502 80 1060 1070 1847 1857
11 57 54 250 278 244 39 34 40 290 330 .88 0 .214 .871 68 70 1.025 .862 .976 1.16 .82 541 120 180 192 1850 1862
12 59 56 264 222 185 50 37 44 220 264 .51 0 -.263 .782 76 61 1.427 1.2 .701 .833 .411 458 80 1081 1091 1848 1858
13 64 59 660 523 483 46 40 47 575 622 .91 0 -.199 .702 97 93 1.366 1.148 .732 .871 .658 577 80 531 542 1849 1860
14 61 59 315 317 274 49 43 51 326 377 .86 0 .05 1.024 71 67 1.15 .966 .87 1.035 .767 392 52 1431 1440 1850 1859
15 63 58 5536 1968 1929 44 39 46 2296 2342 .93 0 -1.27 .314 96 91 2.87 2.411 .348 .415 .336 832 156 548 563 1848 1863
16 61 58 394 324 291 39 33 39 346 385 .72 0 -.187 .786 67 78 1.354 1.139 .739 .878 .486 383 52 1455 1464 1847 1856
17 61 58 3115 707 669 44 38 45 796 841 .89 0 -1.968 .176 91 67 4.656 3.913 .215 .256 .2 716 156 569 583 1848 1862
18 59 55 739 403 369 42 34 40 439 479 .76 0 -.751 .382 90 72 2.003 1.683 .499 .594 .399 647 120 1470 1483 1846 1859
19 65 58 379 198 162 43 36 42 193 235 .73 0 -.974 .382 85 45 2.34 1.964 .427 .509 .405 670 120 589 602 1848 1861
20 60 57 2950 1204 1166 43 38 45 1388 1433 .92 0 -1.088 .385 80 79 2.53 2.125 .395 .471 .393 894 208 1489 1505 1844 1860

Total number of rows: 13323

Table truncated, full table size 1524 Kbytes.




Supplementary data files not provided

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