Open AccessLook4TRs: a de novo tool for detecting simple tandem repeats using self-supervised hidden Markov models
Author(s) -
Alfredo Velasco,
Benjamin T. James,
V. Wells,
Hani Z. Girgis
Publication year - 2019
Publication title -
bioinformatics
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 3.599
H-Index - 390
eISSN - 1367-4811
pISSN - 1367-4803
DOI - 10.1093/bioinformatics/btz551
Subject(s) - hidden markov model , computer science , simple (philosophy) , tandem repeat , microsatellite , computational biology , markov model , artificial intelligence , markov chain , machine learning , biology , genetics , genome , gene , allele , philosophy , epistemology
Simple tandem repeats, microsatellites in particular, have regulatory functions, links to several diseases and applications in biotechnology. There is an immediate need for an accurate tool for detecting microsatellites in newly sequenced genomes. The current available tools are either sensitive or specific but not both; some tools require adjusting parameters manually.
Accelerating Research
Robert Robinson Avenue,
Oxford Science Park, Oxford
OX4 4GP, United Kingdom
Address
John Eccles HouseRobert Robinson Avenue,
Oxford Science Park, Oxford
OX4 4GP, United Kingdom