Abstract:
:The iCLIP and eCLIP techniques facilitate the detection of protein-RNA interaction sites at high resolution, based on diagnostic events at crosslink sites. However, previous methods do not explicitly model the specifics of iCLIP and eCLIP truncation patterns and possible biases. We developed PureCLIP ( https://github.com/skrakau/PureCLIP ), a hidden Markov model based approach, which simultaneously performs peak-calling and individual crosslink site detection. It explicitly incorporates a non-specific background signal and, for the first time, non-specific sequence biases. On both simulated and real data, PureCLIP is more accurate in calling crosslink sites than other state-of-the-art methods and has a higher agreement across replicates.
journal_name
Genome Bioljournal_title
Genome biologyauthors
Krakau S,Richard H,Marsico Adoi
10.1186/s13059-017-1364-2subject
Has Abstractpub_date
2017-12-28 00:00:00pages
240issue
1eissn
1474-7596issn
1474-760Xpii
10.1186/s13059-017-1364-2journal_volume
18pub_type
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