BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

176 related articles for article (PubMed ID: 35866991)

  • 1. 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]  

  • 2. 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]  

  • 3. FastML: a web server for probabilistic reconstruction of ancestral sequences.
    Ashkenazy H; Penn O; Doron-Faigenboim A; Cohen O; Cannarozzi G; Zomer O; Pupko T
    Nucleic Acids Res; 2012 Jul; 40(Web Server issue):W580-4. PubMed ID: 22661579
    [TBL] [Abstract][Full Text] [Related]  

  • 4. 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]  

  • 5. Progressive multiple sequence alignment with indel evolution.
    Maiolo M; Zhang X; Gil M; Anisimova M
    BMC Bioinformatics; 2018 Sep; 19(1):331. PubMed ID: 30241460
    [TBL] [Abstract][Full Text] [Related]  

  • 6. 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]  

  • 7. A Poissonian Model of Indel Rate Variation for Phylogenetic Tree Inference.
    Zhai Y; Alexandre BC
    Syst Biol; 2017 Sep; 66(5):698-714. PubMed ID: 28204784
    [TBL] [Abstract][Full Text] [Related]  

  • 8. 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]  

  • 9. Please Mind the Gap: Indel-Aware Parsimony for Fast and Accurate Ancestral Sequence Reconstruction and Multiple Sequence Alignment including Long Indels.
    Iglhaut C; Pečerska J; Gil M; Anisimova M
    Mol Biol Evol; 2024 Jun; ():. PubMed ID: 38842253
    [TBL] [Abstract][Full Text] [Related]  

  • 10. On the inference of parsimonious indel evolutionary scenarios.
    Chindelevitch L; Li Z; Blais E; Blanchette M
    J Bioinform Comput Biol; 2006 Jun; 4(3):721-44. PubMed ID: 16960972
    [TBL] [Abstract][Full Text] [Related]  

  • 11. Engineering indel and substitution variants of diverse and ancient enzymes using Graphical Representation of Ancestral Sequence Predictions (GRASP).
    Foley G; Mora A; Ross CM; Bottoms S; Sützl L; Lamprecht ML; Zaugg J; Essebier A; Balderson B; Newell R; Thomson RES; Kobe B; Barnard RT; Guddat L; Schenk G; Carsten J; Gumulya Y; Rost B; Haltrich D; Sieber V; Gillam EMJ; Bodén M
    PLoS Comput Biol; 2022 Oct; 18(10):e1010633. PubMed ID: 36279274
    [TBL] [Abstract][Full Text] [Related]  

  • 12. An evaluation of phylogenetic methods for reconstructing transmitted HIV variants using longitudinal clonal HIV sequence data.
    McCloskey RM; Liang RH; Harrigan PR; Brumme ZL; Poon AF
    J Virol; 2014 Jun; 88(11):6181-94. PubMed ID: 24648453
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Ancestral sequence alignment under optimal conditions.
    Hudek AK; Brown DG
    BMC Bioinformatics; 2005 Nov; 6():273. PubMed ID: 16293191
    [TBL] [Abstract][Full Text] [Related]  

  • 14. General continuous-time Markov model of sequence evolution via insertions/deletions: are alignment probabilities factorable?
    Ezawa K
    BMC Bioinformatics; 2016 Aug; 17():304. PubMed ID: 27638547
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Ancestral sequence reconstruction in primate mitochondrial DNA: compositional bias and effect on functional inference.
    Krishnan NM; Seligmann H; Stewart CB; De Koning AP; Pollock DD
    Mol Biol Evol; 2004 Oct; 21(10):1871-83. PubMed ID: 15229290
    [TBL] [Abstract][Full Text] [Related]  

  • 16. A new method that simultaneously aligns and reconstructs ancestral sequences for any number of homologous sequences, when the phylogeny is given.
    Hein J
    Mol Biol Evol; 1989 Nov; 6(6):649-68. PubMed ID: 2488477
    [TBL] [Abstract][Full Text] [Related]  

  • 17. Reconstruction of ancestral protein sequences and its applications.
    Cai W; Pei J; Grishin NV
    BMC Evol Biol; 2004 Sep; 4():33. PubMed ID: 15377393
    [TBL] [Abstract][Full Text] [Related]  

  • 18. A Probabilistic Model for Indel Evolution: Differentiating Insertions from Deletions.
    Loewenthal G; Rapoport D; Avram O; Moshe A; Wygoda E; Itzkovitch A; Israeli O; Azouri D; Cartwright RA; Mayrose I; Pupko T
    Mol Biol Evol; 2021 Dec; 38(12):5769-5781. PubMed ID: 34469521
    [TBL] [Abstract][Full Text] [Related]  

  • 19. A Simulation-Based Approach to Statistical Alignment.
    Levy Karin E; Ashkenazy H; Hein J; Pupko T
    Syst Biol; 2019 Mar; 68(2):252-266. PubMed ID: 30239957
    [TBL] [Abstract][Full Text] [Related]  

  • 20. Bayesian coestimation of phylogeny and sequence alignment.
    Lunter G; Miklós I; Drummond A; Jensen JL; Hein J
    BMC Bioinformatics; 2005 Apr; 6():83. PubMed ID: 15804354
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 9.