Moved to https://github.com/quest-bih/ctregistries and archived as v1.0.1
The goal of ctregistries is to facilitate the detection and analysis of clinical trial registration numbers. ctregistries is primarily a data package of regular expressions (regexes) and provides some R functions for implementing the regexes.
Regular expressions were developed for trial registration numbers (TRN) from World Health Organization (WHO) International Clinical Trials Registry Platform (ICTRP) Primary Registries (https://www.who.int/ictrp/network/primary/en/) and MEDLINE Databank Sources (https://www.nlm.nih.gov/bsd/medline_databank_source.html).
Additional, non-trial databanks indexed by MEDLINE (e.g., figshare) are also included, without regexes.
You can install the development version of ctregistries from GitHub:
# install.packages("devtools")
devtools::install_github("maia-sh/ctregistries")ctregistries provides the registries dataframe with regular
expressions for each registry. The registries dataframe is a subset of
the larger databanks dataframe which additionally includes non-trial
databanks indexed by MEDLINE (e.g., figshare) without regexes.
registries is created by filtering databanks for
databank_type == "registry.
library(ctregistries)
head(registries) %>% knitr::kable()| registry | databank_full_name | medline_start_date | databank_type | trn_regex | medline_si | who_ictrp_primary_registry | registry_website |
|---|---|---|---|---|---|---|---|
| ANZCTR | Australian New Zealand Clinical Trials Registry | 2014 | registry | (?i)(ACTRN|ANZCTR)[[:blank:][:punct:]]*126 | TRUE | TRUE | https://www.anzctr.org.au/ |
| ChiCTR | Chinese Clinical Trials Registry | 2014 | registry | (?i)ChiCTR[[:blank:][:punct:]](|[[:blank:][:punct:]]) | TRUE | TRUE | http://www.chictr.org.cn/ |
| CRiS | Clinical Research Information Service, Republic of Korea | 2014 | registry | (?i)KCT[[:blank:][:punct:]]*00 | TRUE | TRUE | http://cris.nih.go.kr/cris/en/use_guide/cris_introduce.jsp |
| ClinicalTrials.gov | ClinicalTrials.gov Database (NIH/NLM) | 2005 | registry | (?i)NCT[[:blank:][:punct:]]*0 | TRUE | FALSE | https://clinicaltrials.gov/ |
| CTRI | Clinical Trials Registry - India | 2014 | registry | (?i)CTRI[[:blank:][:punct:]]/[[:blank:][:punct:]]20[[:blank:][:punct:]]/[[:blank:][:punct:]][[:blank:][:punct:]]*/[[:blank:][:punct:]]*0 | TRUE | TRUE | http://ctri.nic.in/ |
| DRKS | German Clinical Trials Register | 2014 | registry | (?i)DRKS[[:blank:][:punct:]]*000 | TRUE | TRUE | http://www.germanctr.de/ |
databanks$databank
#> [1] "ANZCTR" "ChiCTR" "CRiS"
#> [4] "ClinicalTrials.gov" "CTRI" "DRKS"
#> [7] "EudraCT" "IRCT" "ISRCTN"
#> [10] "JapicCTI" "JMACCT" "JPRN"
#> [13] "jRCT" "LBCTR" "NTR"
#> [16] "PACTR" "ReBec" "REPEC"
#> [19] "RPCEC" "SLCTR" "TCTR"
#> [22] "UMIN-CTR" "BioProject" "dbGaP"
#> [25] "dbSNP" "dbVar" "Dryad"
#> [28] "figshare" "GDB" "GENBANK"
#> [31] "GEO" "OMIM" "PDB"
#> [34] "PIR" "PubChem-BioAssay" "PubChem-Compound"
#> [37] "PubChem-Substance" "RefSeq" "SRA"
#> [40] "SWISSPROT" "UniMES" "UniParc"
#> [43] "UniProtKB" "UniRef"ctregistries provides some functions implementing the registries
dataset to detect trial registration numbers and registries in both
vectors and dataframes.
library(ctregistries)
# Check whether there is a TRN
has_trn(c("NCT00312962", "hello", "euctr2020-001808-42", NA))
#> [1] TRUE FALSE TRUE NA
# Extract the TRNs
which_trn("NCT00312962 and euctr2020-001808-42")
#> [1] "NCT00312962" "2020-001808-42"
which_trns(c("NCT00312962", "hello", "euctr2020-001808-42", NA))
#> [1] "NCT00312962" NA "2020-001808-42" NA
# Identify the registry
which_registry("NCT00312962 and euctr2020-001808-42")
#> [1] "ClinicalTrials.gov" "EudraCT"
which_registries(c("NCT00312962", "hello", "euctr2020-001808-42", NA))
#> [1] "ClinicalTrials.gov" NA "EudraCT"
#> [4] NA
# Add the trn and registry to a dataframe
mutate_trn_registry(sample_trn_df, text)
#> # A tibble: 7 × 5
#> id text registry_guess registry trn
#> <dbl> <chr> <chr> <chr> <chr>
#> 1 1 NCT00312962 clinicaltrial… Clinica… NCT0…
#> 2 2 hello <NA> <NA> <NA>
#> 3 3 <NA> ChiCTR <NA> <NA>
#> 4 4 euctr2020-001808-42 EudraCT EudraCT 2020…
#> 5 5 German Clinical Trial Registry Identifier… DRKS DRKS DRKS…
#> 6 6 ClinicalTrials.gov number, NCT00268476 , … ISRCTN Clinica… NCT0…
#> 7 6 ClinicalTrials.gov number, NCT00268476 , … ISRCTN ISRCTN ISRC…Salholz-Hillel M (2022). ctregistries: Data package and R functions for clinical trial registries and other MEDLINE databanks. doi:10.5281/zenodo.16949292, Version 1.0.1, RRID:SCR_024412, https://github.com/maia-sh/ctregistries.
ctregistries was initially developed for the following research project:
Salholz-Hillel M, Strech D, Carlisle B (2022). Results publications are inadequately linked to trial registrations: An automated pipeline and evaluation of German university medical centers. Clinical Trials, 19(3), 337-346. doi:10.1177/17407745221087456.