The goal of the Cancer Trials Explorer (CTE) package is to provide an easy way to query clinical trials that are interventional (as opposed to observational) and related to cancer (i.e., listing conditions with cancer-related terms).
You can install the development version of CTE like so:
devtools::install_github("mrblasco/CTE")This repository pulls data from several sources:
Please, refer to the information reported in the urls above for further information about the data sources.
The package provides functions to find cancer-related clinical trials that list a particular drug as treatment intervention.
For example, you can query all cancer-related CTs associated with the chemical compound Bortezomib like so:
library(CTE)
tbl <- find_intervention("Bortezomib")
tbl
# A tibble: 54 × 8
id name title status date description enrollment enrollment_type
<chr> <chr> <chr> <chr> <date> <chr> <dbl> <chr>
1 NCT00006362 bort… A Ph… Compl… 2000-10-04 "OBJECTIVE… NA NA
2 NCT00006773 bort… Phas… Termi… 2000-12-06 "OBJECTIVE… 42 Actual
3 NCT00011778 bort… A Ph… Compl… 2001-02-28 "Backgroun… 25 Actual
4 NCT00024011 bort… A Ph… Compl… 2001-09-13 "OBJECTIVE… 50 Actual
5 NCT00027716 bort… A Mu… Compl… 2001-12-07 "OBJECTIVE… NA NA
6 NCT00051987 VELC… A Ra… Compl… 2003-01-21 "In this s… 175 NA
7 NCT00052689 bort… A Ra… Compl… 2003-01-24 "OBJECTIVE… 88 Anticipated
8 NCT00061932 bort… A Ph… Compl… 2003-06-05 "PRIMARY O… 41 Actual
9 NCT00072150 bort… Phas… Compl… 2003-11-04 "PRIMARY O… 40 Actual
10 NCT00077428 bort… Phas… Compl… 2004-02-10 "OBJECTIVE… 37 Actual
You can also query all cancer-related clinical trials in the package to see what interventions have been targeting a specific condition.
For example, you can query all the drugs listed as interventions in CTs related to sarcomas with the following commands:
find_drugs("sarcoma")
# A tibble: 1,200 × 5
name num_ct first last ct_id
<chr> <int> <date> <date> <chr>
1 Doxorubicin 66 2002-05-29 2021-08-02 NCT00038142|NCT000683…
2 Temozolomide 63 2005-01-31 2021-05-15 NCT00102648|NCT001947…
3 ifosfamide 52 1999-11-01 2014-08-15 NCT00001300|NCT000024…
4 Cyclophosphamide 49 2002-05-29 2021-07-09 NCT00038142|NCT001651…
5 doxorubicin hydrochloride 49 1999-11-01 2010-08-25 NCT00002466|NCT000024…
6 Ifosfamide 39 1999-11-01 2021-07-13 NCT00003657|NCT000895…
7 cyclophosphamide 37 1999-11-01 2013-09-16 NCT00002466|NCT000025…
8 etoposide 37 1999-11-01 2013-09-16 NCT00002466|NCT000025…
9 Gemcitabine 34 2003-09-10 2021-05-21 NCT00068393|NCT001425…
10 vincristine sulfate 28 1999-11-01 2008-04-18 NCT00002466|NCT000025…
# … with 1,190 more rows
The vignette explorer in the CTE package contains more details about all the data available and functions for matching drugs by name using fuzzy string matching.
vignette('explorer',package="CTE")
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