FRINK Linked Data Fragments server

Matches in SemOpenAlex for { <https://semopenalex.org/work/W2000808726> ?p ?o ?g. }

• W2000808726 endingPage "e34261" @default.
• W2000808726 startingPage "e34261" @default.
• W2000808726 abstract "Both multiple sequence alignment and phylogenetic analysis are problematic in the twilight zone of sequence similarity (≤ 25% amino acid identity). Herein we explore the accuracy of phylogenetic inference at extreme sequence divergence using a variety of simulated data sets. We evaluate four leading multiple sequence alignment (MSA) methods (MAFFT, T-COFFEE, CLUSTAL, and MUSCLE) and six commonly used programs of tree estimation (Distance-based: Neighbor-Joining; Character-based: PhyML, RAxML, GARLI, Maximum Parsimony, and Bayesian) against a novel MSA-independent method (PHYRN) described here. Strikingly, at midnight zone genetic distances (~7% pairwise identity and 4.0 gaps per position), PHYRN returns high-resolution phylogenies that outperform traditional approaches. We reason this is due to PHRYN's capability to amplify informative positions, even at the most extreme levels of sequence divergence. We also assess the applicability of the PHYRN algorithm for inferring deep evolutionary relationships in the divergent DANGER protein superfamily, for which PHYRN infers a more robust tree compared to MSA-based approaches. Taken together, these results demonstrate that PHYRN represents a powerful mechanism for mapping uncharted frontiers in highly divergent protein sequence data sets." @default.
• W2000808726 created "2016-06-24" @default.
• W2000808726 creator A5015603075 @default.
• W2000808726 creator A5020428868 @default.
• W2000808726 creator A5041839804 @default.
• W2000808726 creator A5048995657 @default.
• W2000808726 creator A5053080464 @default.
• W2000808726 creator A5058638624 @default.
• W2000808726 creator A5069332795 @default.
• W2000808726 creator A5075868548 @default.
• W2000808726 creator A5077675832 @default.
• W2000808726 creator A5077795743 @default.
• W2000808726 creator A5080559592 @default.
• W2000808726 creator A5085736091 @default.
• W2000808726 creator A5089737356 @default.
• W2000808726 creator A5090688999 @default.
• W2000808726 creator A5091436713 @default.
• W2000808726 date "2012-04-13" @default.
• W2000808726 modified "2023-09-27" @default.
• W2000808726 title "PHYRN: A Robust Method for Phylogenetic Analysis of Highly Divergent Sequences" @default.
• W2000808726 cites W118013854 @default.
• W2000808726 cites W1496346569 @default.
• W2000808726 cites W1600438564 @default.
• W2000808726 cites W1636647670 @default.
• W2000808726 cites W1646393397 @default.
• W2000808726 cites W1964017923 @default.
• W2000808726 cites W1966952999 @default.
• W2000808726 cites W1971239653 @default.
• W2000808726 cites W1992601827 @default.
• W2000808726 cites W2000519643 @default.
• W2000808726 cites W2002302768 @default.
• W2000808726 cites W2007668764 @default.
• W2000808726 cites W2036177564 @default.
• W2000808726 cites W2036744511 @default.
• W2000808726 cites W2036818543 @default.
• W2000808726 cites W2037993016 @default.
• W2000808726 cites W2060425093 @default.
• W2000808726 cites W2072357181 @default.
• W2000808726 cites W2075567747 @default.
• W2000808726 cites W2077770566 @default.
• W2000808726 cites W2079836926 @default.
• W2000808726 cites W2083512981 @default.
• W2000808726 cites W2097386339 @default.
• W2000808726 cites W2101797035 @default.
• W2000808726 cites W2103490626 @default.
• W2000808726 cites W2105329815 @default.
• W2000808726 cites W2106814707 @default.
• W2000808726 cites W2106882534 @default.
• W2000808726 cites W2113708808 @default.
• W2000808726 cites W2120819924 @default.
• W2000808726 cites W2121691652 @default.
• W2000808726 cites W2132926880 @default.
• W2000808726 cites W2144362290 @default.
• W2000808726 cites W2146058063 @default.
• W2000808726 cites W2147461064 @default.
• W2000808726 cites W2151831732 @default.
• W2000808726 cites W2159957100 @default.
• W2000808726 cites W2160844444 @default.
• W2000808726 cites W2163627198 @default.
• W2000808726 cites W2168696662 @default.
• W2000808726 cites W2170076805 @default.
• W2000808726 cites W2170831688 @default.
• W2000808726 doi "https://doi.org/10.1371/journal.pone.0034261" @default.
• W2000808726 hasPubMedCentralId "https://www.ncbi.nlm.nih.gov/pmc/articles/3325999" @default.
• W2000808726 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/22514627" @default.
• W2000808726 hasPublicationYear "2012" @default.
• W2000808726 type Work @default.
• W2000808726 sameAs 2000808726 @default.
• W2000808726 citedByCount "18" @default.
• W2000808726 countsByYear W20008087262012 @default.
• W2000808726 countsByYear W20008087262013 @default.
• W2000808726 countsByYear W20008087262015 @default.
• W2000808726 countsByYear W20008087262016 @default.
• W2000808726 countsByYear W20008087262017 @default.
• W2000808726 countsByYear W20008087262019 @default.
• W2000808726 countsByYear W20008087262020 @default.
• W2000808726 countsByYear W20008087262022 @default.
• W2000808726 crossrefType "journal-article" @default.
• W2000808726 hasAuthorship W2000808726A5015603075 @default.
• W2000808726 hasAuthorship W2000808726A5020428868 @default.
• W2000808726 hasAuthorship W2000808726A5041839804 @default.
• W2000808726 hasAuthorship W2000808726A5048995657 @default.
• W2000808726 hasAuthorship W2000808726A5053080464 @default.
• W2000808726 hasAuthorship W2000808726A5058638624 @default.
• W2000808726 hasAuthorship W2000808726A5069332795 @default.
• W2000808726 hasAuthorship W2000808726A5075868548 @default.
• W2000808726 hasAuthorship W2000808726A5077675832 @default.
• W2000808726 hasAuthorship W2000808726A5077795743 @default.
• W2000808726 hasAuthorship W2000808726A5080559592 @default.
• W2000808726 hasAuthorship W2000808726A5085736091 @default.
• W2000808726 hasAuthorship W2000808726A5089737356 @default.
• W2000808726 hasAuthorship W2000808726A5090688999 @default.
• W2000808726 hasAuthorship W2000808726A5091436713 @default.
• W2000808726 hasBestOaLocation W20008087261 @default.
• W2000808726 hasConcept C103278499 @default.
• W2000808726 hasConcept C104317684 @default.
• W2000808726 hasConcept C107673813 @default.
• W2000808726 hasConcept C113174947 @default.

• next