|
| Status |
Public on Jul 24, 2001 |
| Title |
fem3 #1 (red, channel 2) fem1 #1 (green, channel 1) |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
fem1 #1 (green)
|
| Organism |
Caenorhabditis elegans |
| Extracted molecule |
total RNA |
| |
|
| Channel 2 |
| Source name |
fem3 #1 (red)
|
| Organism |
Caenorhabditis elegans |
| Extracted molecule |
total RNA |
| |
|
| |
| Description |
Category: germline
Subcategory: sperm/oocyte
IMPORTANT: This experimental data has been reconstructed from files which contain a list of values proportional to the raw red and green background and intensity measurements for each gene. Since these values are not true signal and background values, the only valid data for this experiment are the RAT2N values (the normalized red-to-green ratio values).
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: ScanAlyze
Software version: 2.44
Scanning parameters:
Lot batch = rosetta_10932_RATIO (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 |
