|
Status |
Public on Jul 25, 2001 |
Title |
G39 genomic DNA vs. Tigr/Astra reference |
Sample type |
genomic |
|
|
Channel 1 |
Source name |
1ug Tigr genomic DNA, 1 ug Astra genomic DNA
|
Organism |
Helicobacter pylori |
Extracted molecule |
genomic DNA |
|
|
Channel 2 |
Source name |
2 ug G39 genomic DNA
|
Organism |
Helicobacter pylori |
Extracted molecule |
genomic DNA |
|
|
|
Description |
Category: Genomic DNA Subcategory: Strain Comparison Scanning Software: ScanAlyze Software version: 2.42 Scanning parameters: Lot batch = hp2051
|
|
|
Submission date |
Jul 25, 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 |
GPL15 |
Series (2) |
GSE6 |
Genetic diversity among Helicobacter pylori strains |
GSE3479 |
Helicobacter pylori bacterial populations |
|
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 |