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2015 ; 76
(7
): 389-96
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Validated MicroRNA Target Databases: An Evaluation
#MMPMID26286669
Lee YJ
; Kim V
; Muth DC
; Witwer KW
Drug Dev Res
2015[Nov]; 76
(7
): 389-96
PMID26286669
show ga
Preclinical Research Positive findings from preclinical and clinical studies
involving depletion or supplementation of microRNA (miRNA) engender optimism
about miRNA-based therapeutics. However, off-target effects must be considered.
Predicting these effects is complicated. Each miRNA may target many gene
transcripts, and the rules governing imperfectly complementary miRNA: target
interactions are incompletely understood. Several databases provide lists of the
relatively small number of experimentally confirmed miRNA: target pairs. Although
incomplete, this information might allow assessment of at least some of the
off-target effects. We evaluated the performance of four databases of
experimentally validated miRNA: target interactions (miRWalk 2.0, miRTarBase,
miRecords, and TarBase 7.0) using a list of 50 alphabetically consecutive genes.
We examined the provided citations to determine the degree to which each
interaction was experimentally supported. To assess stability, we tested at the
beginning and end of a five-month period. Results varied widely by database. Two
of the databases changed significantly over the course of 5 months. Most reported
evidence for miRNA: target interactions were indirect or otherwise weak, and
relatively few interactions were supported by more than one publication. Some
returned results appear to arise from simplistic text searches that offer no
insight into the relationship of the search terms, may not even include the
reported gene or miRNA, and may thus, be invalid. We conclude that validation
databases provide important information, but not all information in all extant
databases is up-to-date or accurate. Nevertheless, the more comprehensive
validation databases may provide useful starting points for investigation of
off-target effects of proposed small RNA therapies.