On the left-hand side under 'Query and List Management", select "Build Gene List/Query Platform for genes". This will bring up the form below. You'll need to select what microarray platform you are interested in. In this case, I've selected Rattus norvegicus.
You can now enter a number of different symbols/values to obtain the corresponding feature numbers for the selected array platform. in the example below i've selected 3 different cyps (one redundant, cyp1b1). The values need to be delimited by commas at this point. also, you can select whether you want a wildcard search to be performed or an exact match to your values. for the wildcard search, if you enter "egf", you would obtain such hits as egfr and vegf. To submit your query, depending on your screen resolution, you may need to scroll down and click the submit button.
After hitting submit, your query is run and the results page is returned. An example is shown below. On the results page you have the ability to deselect any feature numbers that came up. This feature is helpful with wildcard searches. You should enter a name and a description of the list for your own benefit and for the benefit of others if you select the list to be public. Making the list public makes the list available for other researches to use in their queries. However, when made public the lists are really only has useful as the name and description given to them.
The image below is just an example of the filled in form. 
After hitting the submit button a new window or tab will be opened in your browser indicating that the list was succesfully imported. You can click the 'Close Window' button to exit.
To use your saved list, you must choose either "Selected Clustering" or "Ordered List" from the 'Data Analysis' section from the menu on the left-hand side. The example below is using the selected clustering option. You will then have to go to the "Load Gene List Menu" and click on the little arrow pointing down. This will bring up a menu shown below w/ two options, 1: Load Own Gene Lists and 2: Load Public Gene Lists. Even though we made the list that we created public, if it is our own public list it will also show up in our private list menu; therefore, we'll select "Load Own Gene Lists".
This will bring up a selection winoow from which you can choose any number of gene lists that correspond to the array platform of your selected arrays. Be aware that there are different types of arrays and that choosing a gene list not specific to your arrays being queried will result in unpredicatable outcomes due to differences in probes.
This will bring up a selection winoow from which you can choose any number of gene lists that correspond to the array platform of your selected arrays. Be aware that there are different types of arrays and that choosing a gene list not specific to your arrays being queried will result in unpredicatable outcomes due to differences in probes.
After selecting your gene lists, scroll down and click the "Load Gene List(s)" button. This will load the feature #s in the 'Select Feature Numbers' field. You will also notice another form below the "Load Gene List(s)" button. This form is used if you would like to save a concatenate list (i.e., if you've chosen multiple lists and want to consolidate them and create a new private or public list based on multiple gene lists.)
After submission you will be presented w/ a confirmation box. click ok.
At this point you'll need to scroll up and click the circle w/ the small 'x' in it to close the load gene lists window.
At this point you'll need to scroll up and click the circle w/ the small 'x' in it to close the load gene lists window.
Now you can make changes to any of the query parameters and click submit.
Below is the result of the query based on your gene list and parameters set. Notice that Cyp1a2 did not make the cut.
Once you've created a list or lists, you can modify them by using the option "Manage Saved Gene Lists" from the main left-hand side menu. This brings up the window below. You can edit and delete your private and public queries. As of the moment you cannot concatenate them via this route, but you will be able to in the future.
As an example of editing, we'll use the gene list "ahr-regulated genes" we created. By clicking on the "Edit List" button for that list we get the screen below. This form gives you the option to deselect currently selected genes as well as modify the list name, list description and public status. See next image for bottom of form....
Below is confirmation of the modified list being saved.
As proof that it does work, we did another selected clustering using the modified gene list.
Here are the results. Notice that once again cyp1a2 is not present because we didn't change the thresholds, but cyp1b1 is no longer in the results (we removed it when we modified the list).