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The main way to interact with PharmacoDB is through its search interface. The search bar, found on the home page of the website, allows the user to query all the data contained in the database, and functions as the main navigation tool around the web app.

PharmacoDB's search bar takes several distinct types of queries. The simplest is to query for a single specific entity in the database. One can use the search to query for a specific cell (e.g. MCF-7), drug (e.g. 17-AAG), tissue (e.g. breast) or dataset (e.g. CTRPv2). This query would then take you to the corresponding page for that instance.

Search for a cell.
Example search for a cell.

The search bar also allows the user to specify a data type (e.g. cell, drug, dataset), where it would take the user to a page listing all instances of that data type in the database.

Queries consisting of the names of multiple datasets, with a space between dataset names, are also allowed. This query will link the user to a page describing the intersection between the datasets, with tables listing the common cells, drugs and tissue types.

Look up the intersection between studies.
Look up the intersection between studies.

Finally, entering the name of a cell line followed by a drug, or vice versa, also delimited by a space, will direct to a page plotting all the available drug dose response curves for that combination across all datasets in PharmacoDB.

Search for a drug tested on a cell line.
Search for a drug tested on a cell line.

Batch Query

For queries involving multiple cell lines and compounds, users can access the drug sensitivity data via the Batch Query page.

The batch query interface allows users to quickly cut and paste their list of cell lines and compounds of interest.

After submission, a spreadsheet containing all the summary metrics for the drug dose-response curves included in PharmacoDB will be available for download.

Further queries, including comparisons of more data types, and more visualizations of the data provided are in active development, so be sure to check back with the documentation!