SLIMS Online Help
SLIMS Basics and Concepts
Using the tutorials
Installing SLIMS
Starting SLIMS
Main Screen
Standard Commands
Inventory Basics
Browsing Inventory
Controlled Vocabularies
Browsing Compounds
Substructure Searching
Adding Compounds
Adding Batches
Adding Plates
Adding Dilution Series Plates
Plate Reformating
Quick Lists
Adding a Quick List
Deleting A Quick List
Adding Items To Quick Lists
cell types
dilution series protocols
assay protocol
Self-Organizing Maps
Adding a project
Renaming A Project
Add An Experiment
Delete An Experiment
Extend An Experiment
Adding Compounds and Batches
Adding Results to the Database
Making a dilution series plate
Browing the SMA (Spinal Muscular Atrophy) data

Dilution Series Protocols

Hitlist protocols define dilution series plates. They are used to indicate both were compounds are placed on a plate and the concentrations of the plated compounds.

To generate a dilution series, a dilution series protocol must be defined.

Dilution series are very similar to standard protocols, the only major difference is that instead of indicating the positions of the positive and negative controls, you are placing compounds and their respective concentrations.

To add a new dilution protocol, click on the Make Dilution Protocol button in the command pane.  The following window will appear:


First click on the Set Plate Type button and select the appropriate plate type from the list.  If you selected a 384 well plate you will see the following (other plate types will be of different sizes):

The next step is to select a concentration unit.  Concentration units are defined in the unit table.  You will see something like the following.

After the plate type is specified and the concentration unit is selected, you can begin to define your protocol.

To indicate where dilution compounds are located, simply click the mouse on the first well of the dilution series and, while holding the mouse button down,  drag the mouse over to the end well.  When you release the mouse button, a menu will appear:

Initially the menu pops up with the entries "Set New Compound", "Two Fold Dilution" and Clear.  Because the dilution series may be reused, only the position of compounds are entered in the wizard.  These are specified with "Object01" for the first compound, "Object002" for the second compound and so forth.  When you actually create a dilution plate, you will need to tell SLIMS the mapping from each object to the batch or compound being used in that particular plate.
  • Set New Compounds -> set the selected wells to be diluted with a new compound
  • Two Fold Dilution -> create a two fold dilution series, you will be prompted to enter the starting dilution.
  • Clear -> clear the data in the selected wells.

The first time you will probably select "Set New Compounds."

Notice that the selected wells show the object that will be plated in each well.  Every well marked with Object 1 will be plated with the same compound.  Also notice that the initial concentrations are 0.  You will need to reselect the wells and select "Two Fold Dilution" from the menu and then enter the initial dilution concentration.  The two fold dilution command will dilute the entire run of wells starting with the initial dilution concentration, in this case we want to dilute each row independently, so simply select the row starting at B8 and ending at B18.  The following dialog will appear and I will start the dilution series at 4ug/ml.

Now the screen looks like:

Select C8 through C18 and the pop-up menu looks like:

SLIMS remembers the compounds that you have added and the dilution series that you have created.  You can either add Compound 1 to the plate again or, in this case, set the wells to be a dilution series starting at 4 ug/ml:

In this fashion you can complete the dilution protocol.

Clicking on OK will save the protocol in the database, you will be asked to name the protocol before saving.
Clicking on Cancel will not save the protocol in the database.

This HTML Help has been published using the chm2web software.