Help - How to use the RCCL Collection Database
Search Options
The search page offers multiple options to explore and analyse the data present
in the RCCL Collection Database. The options are explained below
See all drug sensitivity data for a particular drug
The search page drug table is shown below. It lists the most widely tested drugs in the database . Each drug name links to page
displaying details about the drug and drug sensitivity data for all the cell lines that it has been tested on.
| Platinum drugs | Alkylating agents | Topoisomerase I inhibitors | Topoisomerase II inhibitors | Tubululin-binding agents | Kinase inhibitors | Anti-metabolites | Others |
|---|---|---|---|---|---|---|---|
| cisplatin | dacarbazine | topotecan | etoposide | vincristine | erlotinib | cytarabine | YM155 |
| carboplatin | melphalan | irinotecan | doxorubicin | vinblastine | gefitinib | gemcitabine | bortezomib |
| oxaliplatin | temozolomide | vinorelbine | |||||
| docetaxel | |||||||
| paclitaxel |
Performing more specific searches
On the search page five different search options are displayed. They enable more complex searches of the database than the single drug selection.
The options for each search are hidden by default, click "Show/Hide search options" to display the form. All search options have buttons to select if
parental (i.e. non drug adapted cell lines) and drug adapted cell lines are returned, both are selected by default. One of these options can be unselected
if you only want to see data from parental or drug adapted cell lines.
1. See all data
The first search option simply returns all of the data in the RCCL database. This enables the user to browse the data. By default only a table
of the result are displayed. A link at the bottom of the page enables the results to be displayed with a bar chart for each drug tested, which is
not shown by default as it can take a few minutes to render.
2. Search for data from a set of cell lines
The second search option enables users to see drug sensitivity data obtained for two or more cell lines. Simply select the cell lines of interest
in the box displayed.
3. Search for data for a type of cancer
The third search option enables users to see drug sensitivity data for cell lines from one or selected cancer type. Simply select the cancer type(s) of interest
in the box displayed.
4. Search for data testing cell line sensitivity to specific drugs
The fourth search option enables users to see drug sensitivity data for specific drugs. Simply select the drug(s) of interest
in the box displayed.
5. Compare Drug sensitivity between two or more cell lines
The fifth search option enables users to compare drug sensitivity data between multiple cell lines. Simply select the cell lines that you would like
to compare from the box displayed.
Interpreting Results
Individual Drug Pages
When users have searched for an individual drug (i.e. select a drug from the drug table shown on the search page) the results page first displays
informaiton about the drug, as shown for carboplatin below. Much of this information is extracted from Wikipedia.
It shows the structure of the drug, clinical data associated with the drug, information on pharmacokinetics and also identifiers for databases that contain information about the drug.
Many of the values displayed are links to the availabel data from that resource on the drug.
The Carboplatin information table
The results table
All results pages display tables containing the returned drug sensitivity data. An example table is shown below for the drug Carboplatin in a selection of cell lines
The columns contain the data as set out below. For the final four columns data is only available for some cell lines, where data is not available for these
the cell is left blank
| Column | Value |
|---|---|
| Cell line name | The name of the cell line that has been used |
| Cancer Type | The type of cancer that the cell line originates from |
| Parental cell line | For drug adapted cell lines the name of the parental cell line is displayed |
| Drug adapted to | For drug adapted cell lines the name of the drug the cell line has been adapted to |
| Drug tested | The name of the drug that sensitivity of the cell line has been tested |
| IC50 of drug tested | The IC50 for the drug tested |
| IC90 | The IC50 for the drug tested |
| ABCB1 status | The status of the ABCB1 expression + indicates overexpression of the gene. |
| ABCC1 status | The status of the ABCC1 expression + indicates overexpression of the gene. |
| p53 status | The name of the cell line that has been used |
An example drug sensitivty table for Carboplatin sensitivity
This table shows drug sensitivity data to carboplatin for the neuroblastoma cell line UKF-NB-3 and drug adapted sub-lines. Data is available for sublines adapted to Cisplatin, Carboplatin, Dacarbazine, Docetaxel, Etoposide, Gemcitabine, Melphalan, Oxaliplatin, Topotecan, vinblastine and Vincristine, as shown in the "drug adapted to" column
Drug sensitivity barcharts
Two types of barcharts are plotted on different results pages, examples are shown below. The first shows data when sensitivity to a single drug
is being displayed. The second type is used when drug sensitivty to multiple drugs is considered. Both charts are interactive, for example moving
the mouse over a column will indicate the name name of the cell line and the IC50 value.
Barchart displaying drug sensitivity to a single drug