On the reliability and the limits of inference of amino acid sequence alignments | Zendy

Sandun Rajapaksa | Zendy; Dinithi Sumanaweera | Zendy; Arthur M. Lesk | Zendy; Lloyd Allison | Zendy; Peter J. Stuckey | Zendy; María García de la Banda | Zendy; David Abramson | Zendy; Arun S. Konagurthu | Zendy

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On the reliability and the limits of inference of amino acid sequence alignments

Author(s) -

Sandun Rajapaksa,

Dinithi Sumanaweera,

Arthur M. Lesk,

Lloyd Allison,

Peter J. Stuckey,

María García de la Banda,

David Abramson,

Arun S. Konagurthu

Publication year - 2022

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/btac247

Subject(s) - inference , sequence (biology) , reliability (semiconductor) , computer science , sequence alignment , computational biology , peptide sequence , genetics , biology , artificial intelligence , gene , power (physics) , physics , quantum mechanics

Alignments are correspondences between sequences. How reliable are alignments of amino acid sequences of proteins, and what inferences about protein relationships can be drawn? Using techniques not previously applied to these questions, by weighting every possible sequence alignment by its posterior probability we derive a formal mathematical expectation, and develop an efficient algorithm for computation of the distance between alternative alignments allowing quantitative comparisons of sequence-based alignments with corresponding reference structure alignments.

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