A probabilistic model for indel evolution: differentiating insertions from deletions
G Loewenthal, D Rapoport, O Avram… - Molecular biology …, 2021 - academic.oup.com
Insertions and deletions (indels) are common molecular evolutionary events. However,
probabilistic models for indel evolution are under-developed due to their computational …
probabilistic models for indel evolution are under-developed due to their computational …
The cumulative indel model: fast and accurate statistical evolutionary alignment
N De Maio - Systematic Biology, 2021 - academic.oup.com
Sequence alignment is essential for phylogenetic and molecular evolution inference, as well
as in many other areas of bioinformatics and evolutionary biology. Inaccurate alignments …
as in many other areas of bioinformatics and evolutionary biology. Inaccurate alignments …
A gentle introduction to probabilistic evolutionary models
A large body of research is dedicated to model sequence evolutionary dynamics. The
evolutionary process may vary within groups of genes, among sites within a gene, between …
evolutionary process may vary within groups of genes, among sites within a gene, between …
Sensitive inference of alignment-safe intervals from biodiverse protein sequence clusters using EMERALD
Abstract Sequence alignments are the foundations of life science research, but most
innovation so far focuses on optimal alignments, while information derived from suboptimal …
innovation so far focuses on optimal alignments, while information derived from suboptimal …
A model of indel evolution by finite-state, continuous-time machines
I Holmes - Genetics, 2020 - academic.oup.com
Model of Indel Evolution by Finite-State, Continuous-Time Machines | Genetics | Oxford
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Statistical compression of protein sequences and inference of marginal probability landscapes over competing alignments using finite state models and Dirichlet priors
The information criterion of minimum message length (MML) provides a powerful statistical
framework for inductive reasoning from observed data. We apply MML to the problem of …
framework for inductive reasoning from observed data. We apply MML to the problem of …
[PDF][PDF] Minimum Message Length Inference of Protein Alignments and Statistical Models of Amino Acid Evolution
DN Sumanaweera - 2021 - scholar.archive.org
Minimum Message Length Inference of Protein Alignments and Statistical Models of Amino Acid
Evolution Page 1 Minimum Message Length Inference of Protein Alignments and Statistical …
Evolution Page 1 Minimum Message Length Inference of Protein Alignments and Statistical …
[图书][B] Population Genetics Model Extensions: Including Indels, Quality Scores, and a Spatial Domain
KJ Shaw - 2022 - search.proquest.com
Due to the large variance in the stochastic nature of evolution and DNA, it can be difficult to
be sure that inferences that use genetical data are perfectly correct. However, as we …
be sure that inferences that use genetical data are perfectly correct. However, as we …
[PDF][PDF] Alingment Neighborhood EXplorer (ANEX): First attempt to apply genuine sequence evolution model with realistic insertions/deletions to Multiple Sequence …
K Ezawa - preprint (KEZW BI ME00006. anex. pdf) available at …, 2020 - bioinformatics.org
Accurately reconstructing pairwise sequence alignments (PWAs) and/or multiple sequence
alignments (MSAs) is a central step in the study of homologous (ie, ancestor-sharing) …
alignments (MSAs) is a central step in the study of homologous (ie, ancestor-sharing) …
[PDF][PDF] Substitutional Residue-Difference Map (SRD Map) to help locate mis-alignments in Multiple Sequence Alignment(MSA): toward Artificial-Intelilgence-assisted …
K Ezawa - preprint (KEZW BI ME00007. srdmap. pdf) available at …, 2020 - researchgate.net
Although reconstruction of multiple sequence alignments (MSAs) is central to the advanced
study of homologous (ie, ancestor-sharing) biological sequences, such as DNA and protein …
study of homologous (ie, ancestor-sharing) biological sequences, such as DNA and protein …