BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

178 related articles for article (PubMed ID: 16960972)

  • 1. 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]  

  • 2. Exact and heuristic algorithms for the Indel Maximum Likelihood Problem.
    Diallo AB; Makarenkov V; Blanchette M
    J Comput Biol; 2007 May; 14(4):446-61. PubMed ID: 17572023
    [TBL] [Abstract][Full Text] [Related]  

  • 3. Chromosome structures: reduction of certain problems with unequal gene content and gene paralogs to integer linear programming.
    Lyubetsky V; Gershgorin R; Gorbunov K
    BMC Bioinformatics; 2017 Dec; 18(1):537. PubMed ID: 29212445
    [TBL] [Abstract][Full Text] [Related]  

  • 4. Algorithms for computing parsimonious evolutionary scenarios for genome evolution, the last universal common ancestor and dominance of horizontal gene transfer in the evolution of prokaryotes.
    Mirkin BG; Fenner TI; Galperin MY; Koonin EV
    BMC Evol Biol; 2003 Jan; 3():2. PubMed ID: 12515582
    [TBL] [Abstract][Full Text] [Related]  

  • 5. 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]  

  • 6. Mixed integer linear programming for maximum-parsimony phylogeny inference.
    Sridhar S; Lam F; Blelloch GE; Ravi R; Schwartz R
    IEEE/ACM Trans Comput Biol Bioinform; 2008; 5(3):323-31. PubMed ID: 18670037
    [TBL] [Abstract][Full Text] [Related]  

  • 7. Reconstructing ancestral genomic sequences by co-evolution: formal definitions, computational issues, and biological examples.
    Tuller T; Birin H; Kupiec M; Ruppin E
    J Comput Biol; 2010 Sep; 17(9):1327-44. PubMed ID: 20874411
    [TBL] [Abstract][Full Text] [Related]  

  • 8. 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]  

  • 9. The tree alignment problem.
    Varón A; Wheeler WC
    BMC Bioinformatics; 2012 Nov; 13():293. PubMed ID: 23140486
    [TBL] [Abstract][Full Text] [Related]  

  • 10. Reconstruction of ancestral genomic sequences using likelihood.
    Elias I; Tuller T
    J Comput Biol; 2007 Mar; 14(2):216-37. PubMed ID: 17456016
    [TBL] [Abstract][Full Text] [Related]  

  • 11. Generalized buneman pruning for inferring the most parsimonious multi-state phylogeny.
    Misra N; Blelloch G; Ravi R; Schwartz R
    J Comput Biol; 2011 Mar; 18(3):445-57. PubMed ID: 21385046
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Optimal phylogenetic reconstruction of insertion and deletion events.
    Tule S; Foley G; Zhao C; Forbes M; Bodén M
    Bioinformatics; 2024 Jun; 40(Supplement_1):i277-i286. PubMed ID: 38940131
    [TBL] [Abstract][Full Text] [Related]  

  • 13. 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]  

  • 14. Computational reconstruction of ancestral DNA sequences.
    Blanchette M; Diallo AB; Green ED; Miller W; Haussler D
    Methods Mol Biol; 2008; 422():171-84. PubMed ID: 18629667
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Small parsimony for natural genomes in the DCJ-indel model.
    Doerr D; Chauve C
    J Bioinform Comput Biol; 2021 Dec; 19(6):2140009. PubMed ID: 34806948
    [TBL] [Abstract][Full Text] [Related]  

  • 16. Direct maximum parsimony phylogeny reconstruction from genotype data.
    Sridhar S; Lam F; Blelloch GE; Ravi R; Schwartz R
    BMC Bioinformatics; 2007 Dec; 8():472. PubMed ID: 18053244
    [TBL] [Abstract][Full Text] [Related]  

  • 17. Fast ancestral gene order reconstruction of genomes with unequal gene content.
    Feijão P; Araujo E
    BMC Bioinformatics; 2016 Nov; 17(Suppl 14):413. PubMed ID: 28185578
    [TBL] [Abstract][Full Text] [Related]  

  • 18. The SCJ Small Parsimony Problem for Weighted Gene Adjacencies.
    Luhmann N; Lafond M; Thevenin A; Ouangraoua A; Wittler R; Chauve C
    IEEE/ACM Trans Comput Biol Bioinform; 2019; 16(4):1364-1373. PubMed ID: 28166504
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Reconstructing large regions of an ancestral mammalian genome in silico.
    Blanchette M; Green ED; Miller W; Haussler D
    Genome Res; 2004 Dec; 14(12):2412-23. PubMed ID: 15574820
    [TBL] [Abstract][Full Text] [Related]  

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

    [Next]    [New Search]
    of 9.