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Evolutionary analyses of base-pairing interactions in DNA and RNA secondary structures

Abstract:

Pairs of nucleotides within functional nucleic acid secondary structures often display evidence of coevolution that is consistent with the maintenance of base-pairing. Here we introduce a sequence evolution model, MESSI, that infers coevolution associated with base-paired sites in DNA or RNA sequence alignments. MESSI can estimate coevolution whilst accounting for an unknown secondary structure. MESSI can also use GPU parallelism to increase computational speed. We used MESSI to infer coevolu...

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Publication status:
Not published
Peer review status:
Reviewed (other)

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Publisher copy:
10.1101/419341

Authors


More by this author
Institution:
University of Oxford
Division:
MPLS Division
Department:
Statistics
Role:
Author
More by this author
Institution:
University of Oxford
Division:
MPLS Division
Department:
Zoology
Role:
Author
More by this author
Institution:
University of Oxford
Division:
MPLS
Department:
Statistics
Oxford college:
University College
Role:
Author
ORCID:
0000-0002-8100-0824
Series:
BioRxiv
Host title:
BioRxiv
Publication date:
2019-05-01
Acceptance date:
2018-09-16
DOI:
Source identifiers:
1027203
Pubs id:
pubs:1027203
UUID:
uuid:26994364-c364-414f-a14f-9318a7534698
Local pid:
pubs:1027203
Deposit date:
2019-07-05

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