MicroStation System, MicroLog Version 4.2 - DTU Systems Biology ...

Appendix 5: Program Printouts
FF Printout Key
1. Software version
2. If the printout is from a saved file, this entry lists file name, position of the entry in
the file, and edit status.
3. Threshold mode. This listing may say “Manual” or “Automatic.” In Automatic
mode, the software automatically calculates a threshold cutoff for negative and
positive reactions, indicated by numerical OD values. Any values between these two
numbers are considered borderline. The threshold can change from MicroPlate to
MicroPlate, depending on the intensity of the positive reactions and the clarity of the
negative reactions. Two thresholds are given for the FF MicroPlate: color (for 490
nm readings) and turbidity (for 750 nm readings).
4. Filters and their positions
5. Time MicroPlate was read
6. Time file was modified
7. Does user have Unrestricted Access to software?
8. Number of MicroPlate
9. Sample identifiers
10. Operating mode (file)
11. Number of positive, borderline, and negative reactions and listed for color and
turbidity
12. Name of database searched
13. OD data for each well (in 8x12 format)
• For color data: The numbers seen in each well is the percent change data of the
optical density of the difference between 490nm and 750 nm compared to the
A1 control well (A1 will always be 0). The Dual Wavelength Data formula =.
DWD = (490nm - 750nm)x - (490nm - 750nm)A1 x 1000, where x = any
well. The turbidity is subtracted out to obtain the OD contributed by the color
• For the Turbidity Data: The numbers seen in each well is the percent change
data of the optical density of the 750 nm readings compared to the A1 control
well (A1 will always be 0). The % Change formula = % Change 750nm =
(750nmx - 750nmA1 ) x 1600, where x = any well*
• Positive (), borderline ({}), and negative reactions (no brackets). Numbers
with no brackets and a plus (+) on the right side are mismatches. The well read
as negative, but at least 80% of the strains of that organism tested in our
database were positive for that well. Numbers with a < on the left and a minus (–
) on the right are also mismatches, but the well read as positive, while the strains
in our database were mostly negative for that well. Numbers with a minus (-) to
the left of the well value mean that the well’s OD was less than the OD of the
control well.
14. Species Identification/#1 identification
15. #2-9 identifications
*We use a larger multiplication factor for the turbidity to have the OD readings on the same scale as 490 readings.
MicroStation System/MicroLog User Guide Apr 07 Section 13 � Page 45