541 related articles for article (PubMed ID: 27638547)
21. Using hidden Markov models to align multiple sequences.
Mount DW
Cold Spring Harb Protoc; 2009 Jul; 2009(7):pdb.top41. PubMed ID: 20147223
[TBL] [Abstract][Full Text] [Related]
22. Statistically consistent and computationally efficient inference of ancestral DNA sequences in the TKF91 model under dense taxon sampling.
Fan WT; Roch S
Bull Math Biol; 2020 Jan; 82(2):21. PubMed ID: 31970502
[TBL] [Abstract][Full Text] [Related]
23. A DNA sequence evolution analysis generalized by simulation and the markov chain monte carlo method implicates strand slippage in a majority of insertions and deletions.
Nishizawa M; Nishizawa K
J Mol Evol; 2002 Dec; 55(6):706-17. PubMed ID: 12486529
[TBL] [Abstract][Full Text] [Related]
24. Improving profile HMM discrimination by adapting transition probabilities.
Wistrand M; Sonnhammer EL
J Mol Biol; 2004 May; 338(4):847-54. PubMed ID: 15099750
[TBL] [Abstract][Full Text] [Related]
25. The size distribution of insertions and deletions in human and rodent pseudogenes suggests the logarithmic gap penalty for sequence alignment.
Gu X; Li WH
J Mol Evol; 1995 Apr; 40(4):464-73. PubMed ID: 7769622
[TBL] [Abstract][Full Text] [Related]
26. Evolutionary inference via the Poisson Indel Process.
Bouchard-Côté A; Jordan MI
Proc Natl Acad Sci U S A; 2013 Jan; 110(4):1160-6. PubMed ID: 23275296
[TBL] [Abstract][Full Text] [Related]
27. A probabilistic model for sequence alignment with context-sensitive indels.
Hickey G; Blanchette M
J Comput Biol; 2011 Nov; 18(11):1449-64. PubMed ID: 21951055
[TBL] [Abstract][Full Text] [Related]
28. ProPIP: a tool for progressive multiple sequence alignment with Poisson Indel Process.
Maiolo M; Gatti L; Frei D; Leidi T; Gil M; Anisimova M
BMC Bioinformatics; 2021 Oct; 22(1):518. PubMed ID: 34689750
[TBL] [Abstract][Full Text] [Related]
29. Basing population genetic inferences and models of molecular evolution upon desired stationary distributions of DNA or protein sequences.
Choi SC; Redelings BD; Thorne JL
Philos Trans R Soc Lond B Biol Sci; 2008 Dec; 363(1512):3931-9. PubMed ID: 18852105
[TBL] [Abstract][Full Text] [Related]
30. Strong heterogeneity in mutation rate causes misleading hallmarks of natural selection on indel mutations in the human genome.
Kvikstad EM; Duret L
Mol Biol Evol; 2014 Jan; 31(1):23-36. PubMed ID: 24113537
[TBL] [Abstract][Full Text] [Related]
31. Parameterizing sequence alignment with an explicit evolutionary model.
Rivas E; Eddy SR
BMC Bioinformatics; 2015 Dec; 16():406. PubMed ID: 26652060
[TBL] [Abstract][Full Text] [Related]
32. Genome and gene alterations by insertions and deletions in the evolution of human and chimpanzee chromosome 22.
Volfovsky N; Oleksyk TK; Cruz KC; Truelove AL; Stephens RM; Smith MW
BMC Genomics; 2009 Jan; 10():51. PubMed ID: 19171065
[TBL] [Abstract][Full Text] [Related]
33. Statistical framework to determine indel-length distribution.
Wygoda E; Loewenthal G; Moshe A; Alburquerque M; Mayrose I; Pupko T
Bioinformatics; 2024 Feb; 40(2):. PubMed ID: 38269647
[TBL] [Abstract][Full Text] [Related]
34. Using the Evolutionary History of Proteins to Engineer Insertion-Deletion Mutants from Robust, Ancestral Templates Using Graphical Representation of Ancestral Sequence Predictions (GRASP).
Ross CM; Foley G; Boden M; Gillam EMJ
Methods Mol Biol; 2022; 2397():85-110. PubMed ID: 34813061
[TBL] [Abstract][Full Text] [Related]
35. The evolution of small insertions and deletions in the coding genes of Drosophila melanogaster.
Chong Z; Zhai W; Li C; Gao M; Gong Q; Ruan J; Li J; Jiang L; Lv X; Hungate E; Wu CI
Mol Biol Evol; 2013 Dec; 30(12):2699-708. PubMed ID: 24077769
[TBL] [Abstract][Full Text] [Related]
36. INDELible: a flexible simulator of biological sequence evolution.
Fletcher W; Yang Z
Mol Biol Evol; 2009 Aug; 26(8):1879-88. PubMed ID: 19423664
[TBL] [Abstract][Full Text] [Related]
37. ARPIP: Ancestral Sequence Reconstruction with Insertions and Deletions under the Poisson Indel Process.
Jowkar G; Pečerska J; Maiolo M; Gil M; Anisimova M
Syst Biol; 2023 Jun; 72(2):307-318. PubMed ID: 35866991
[TBL] [Abstract][Full Text] [Related]
38. Accurate reconstruction of insertion-deletion histories by statistical phylogenetics.
Westesson O; Lunter G; Paten B; Holmes I
PLoS One; 2012; 7(4):e34572. PubMed ID: 22536326
[TBL] [Abstract][Full Text] [Related]
39. Evolution of protein indels in plants, animals and fungi.
Ajawatanawong P; Baldauf SL
BMC Evol Biol; 2013 Jul; 13():140. PubMed ID: 23826714
[TBL] [Abstract][Full Text] [Related]
40. Indel reliability in indel-based phylogenetic inference.
Ashkenazy H; Cohen O; Pupko T; Huchon D
Genome Biol Evol; 2014 Nov; 6(12):3199-209. PubMed ID: 25409663
[TBL] [Abstract][Full Text] [Related]
[Previous] [Next] [New Search]
