ARPIP: Ancestral sequence Reconstruction with insertions and deletions under the Poisson Indel Process.
Sign Up to like & getrecommendations! Published in 2022 at "Systematic biology"
DOI: 10.1093/sysbio/syac050
Abstract: Modern phylogenetic methods allow inference of ancestral molecular sequences given an alignment and phylogeny relating present day sequences. This provides insight into the evolutionary history of molecules, helping to understand gene function and to study… read more here.
Keywords: insertions deletions; reconstruction insertions; ancestral sequence; poisson indel ... See more keywords
Insertions and deletions mediated functional divergence of Rossmann fold enzymes
Sign Up to like & getrecommendations! Published in 2022 at "Proceedings of the National Academy of Sciences of the United States of America"
DOI: 10.1101/2022.05.16.491946
Abstract: Nucleobase-containing coenzymes are considered the relics of an early RNA-based world that preceded the emergence of protein domains. Despite the importance of coenzyme-protein synergisms, their emergence and evolution remain poorly understood. An excellent target to… read more here.
Keywords: rossmann; insertions deletions; coenzyme; sam binding ... See more keywords
Marker Codes Using the Decoding Based on Weighted Levenshtein Distance in the Presence of Insertions/Deletions
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DOI: 10.1109/access.2020.3037169
Abstract: A random marker code is inserted into the information sequences periodically, and a novel symbol-level decoding algorithm considering the weighted Levenshtein distance (WLD) is designed for correcting insertions, deletions, as well as substitutions in the… read more here.
Keywords: codes using; marker codes; levenshtein distance; insertions deletions ... See more keywords
Synchronization Strings and Codes for Insertions and Deletions—A Survey
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DOI: 10.1109/tit.2021.3056317
Abstract: Already in the 1960s, Levenshtein and others studied error-correcting codes that protect against synchronization errors, such as symbol insertions and deletions. However, despite significant efforts, progress on designing such codes has been lagging until recently,… read more here.
Keywords: error correcting; synchronization strings; synchronization; correcting codes ... See more keywords
Whole genome sequencing data of 1110 Mycobacterium tuberculosis isolates identifies insertions and deletions associated with drug resistance
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DOI: 10.1186/s12864-018-4734-6
Abstract: BackgroundDrug resistance in Mycobacterium tuberculosis (MTB) is one of the major challenges in tuberculosis (TB) treatment. However, known mutations cannot explain all of the cases of resistance and little research has focused on the relationship… read more here.
Keywords: drug resistance; whole genome; drug; resistance ... See more keywords
Comprehensive evaluation of structural variant genotyping methods based on long-read sequencing data
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DOI: 10.1186/s12864-022-08548-y
Abstract: Background Structural variants (SVs) play a crucial role in gene regulation, trait association, and disease in humans. SV genotyping has been extensively applied in genomics research and clinical diagnosis. Although a growing number of SV… read more here.
Keywords: genotyping methods; evaluation structural; long read; comprehensive evaluation ... See more keywords