Assay data plates are converted into results through the use of a
protocol. Protocols define how
microtiter results are combined and converted into normalized scores.
Protocols are created when adding experiments to projects.
To create a new protocol, click on the "Make Protocol..." button in
the command pane. To view an existing
protocol, click on the "View Protocol..." button in the command pane.
You can also create new
protocols while adding results.
The process of generating a protocol is described here as a
supplement to the process of adding results.
How to add a new protocol:
Navigate to the protocol inventory and click on the "Make Protocol"
The first thing you will need to do is to select a plate type for your
only cares about the size of the plates as far as the plate type is
will be able to load results using the same protocol even if the are
created with many different plate types.
The next step is to select the wells that contain the control
compounds. To do this click an
initial cell and, while holding the mouse button down, drag the mouse
over the appropriate
controll wells. Then release the mouse. At this point you will be given
a list of
options indicating what type of control wells you would like to create.
- + positive control well(s)
- - negative control well(s)
- x collect no data from this well
- clear clear the well
- Select how you would like to combine the control wells. You can
choose to use
the control's mean value or median values.
- Finally, select a scoring scheme. You can select to compute a
percent inhibition for
each well, a percent enhancement or a fold increase. These are computed
as follows, x
is the value read from the plate, P is the combined positive controls
is the combined negative controls. Both the percent inhibition
and percent enhancement are centered on zero. The negative
controls are at -100% and the positive controls are at 100%
- Percent Inhibition
(1 - (x - N)/(P - N)) * 100 - 100
- Percent Enhancement
(x - N)/(P - N)) * 100 - 100
- Fold Increase