Patane J, Martins Jr J, Setubal J
Methods Mol Biol. 2024; 2802:267-345.
PMID: 38819564
DOI: 10.1007/978-1-0716-3838-5_11.
Fleming J, Valero-Gracia A, Struck T
Evol Appl. 2023; 16(6):1087-1104.
PMID: 37360032
PMC: 10286231.
DOI: 10.1111/eva.13565.
Agor J, Ozaltin O
Hum Vaccin Immunother. 2018; 14(3):678-683.
PMID: 29337643
PMC: 5861780.
DOI: 10.1080/21645515.2017.1423152.
Nasir A, Kim K, Caetano-Anolles G
Front Microbiol. 2017; 8:1178.
PMID: 28690608
PMC: 5481351.
DOI: 10.3389/fmicb.2017.01178.
Fiorini N, Lefort V, Chevenet F, Berry V, Arigon Chifolleau A
BMC Evol Biol. 2014; 14:253.
PMID: 25496383
PMC: 4271409.
DOI: 10.1186/s12862-014-0253-5.
Selecting informative subsets of sparse supermatrices increases the chance to find correct trees.
Misof B, Meyer B, von Reumont B, Kuck P, Misof K, Meusemann K
BMC Bioinformatics. 2013; 14:348.
PMID: 24299043
PMC: 3890606.
DOI: 10.1186/1471-2105-14-348.
Comprehensive phylogenetic reconstruction of amoebozoa based on concatenated analyses of SSU-rDNA and actin genes.
Lahr D, Grant J, Nguyen T, Lin J, Katz L
PLoS One. 2011; 6(7):e22780.
PMID: 21829512
PMC: 3145751.
DOI: 10.1371/journal.pone.0022780.
Overcoming the effects of rogue taxa: Evolutionary relationships of the bee flies.
Trautwein M, Wiegmann B, Yeates D
PLoS Curr. 2011; 3:RRN1233.
PMID: 21686308
PMC: 3088465.
DOI: 10.1371/currents.RRN1233.
Total evidence, average consensus and matrix representation with parsimony: what a difference distances make.
Levasseur C, Lapointe F
Evol Bioinform Online. 2009; 2:1-5.
PMID: 19455197
PMC: 2674675.
Fast structural search in phylogenetic databases.
Wang J, Shan H, Shasha D, Piel W
Evol Bioinform Online. 2009; 1:37-46.
PMID: 19325851
PMC: 2658875.
Eumalacostracan phylogeny and total evidence: limitations of the usual suspects.
Jenner R, Ni Dhubhghaill C, Ferla M, Wills M
BMC Evol Biol. 2009; 9:21.
PMID: 19173741
PMC: 2640363.
DOI: 10.1186/1471-2148-9-21.
Dinosaurs and the Cretaceous Terrestrial Revolution.
Lloyd G, Davis K, Pisani D, Tarver J, Ruta M, Sakamoto M
Proc Biol Sci. 2008; 275(1650):2483-90.
PMID: 18647715
PMC: 2603200.
DOI: 10.1098/rspb.2008.0715.
Multigene phylogeny of the Mustelidae: resolving relationships, tempo and biogeographic history of a mammalian adaptive radiation.
Koepfli K, Deere K, Slater G, Begg C, Begg K, Grassman L
BMC Biol. 2008; 6:10.
PMID: 18275614
PMC: 2276185.
DOI: 10.1186/1741-7007-6-10.
Picoeukaryotic sequences in the Sargasso sea metagenome.
Piganeau G, Desdevises Y, Derelle E, Moreau H
Genome Biol. 2008; 9(1):R5.
PMID: 18179699
PMC: 2395239.
DOI: 10.1186/gb-2008-9-1-r5.
A supertree of temnospondyli: cladogenetic patterns in the most species-rich group of early tetrapods.
Ruta M, Pisani D, Lloyd G, Benton M
Proc Biol Sci. 2007; 274(1629):3087-95.
PMID: 17925278
PMC: 2293949.
DOI: 10.1098/rspb.2007.1250.
Automated interpretation of subcellular patterns in fluorescence microscope images for location proteomics.
Chen X, Velliste M, Murphy R
Cytometry A. 2006; 69(7):631-40.
PMID: 16752421
PMC: 2901544.
DOI: 10.1002/cyto.a.20280.
The evolution of parental care and egg size: a comparative analysis in frogs.
Summers K, Sea McKeon C, Heying H
Proc Biol Sci. 2006; 273(1587):687-92.
PMID: 16608687
PMC: 1560067.
DOI: 10.1098/rspb.2005.3368.
Objective clustering of proteins based on subcellular location patterns.
Chen X, Murphy R
J Biomed Biotechnol. 2005; 2005(2):87-95.
PMID: 16046813
PMC: 1184054.
DOI: 10.1155/JBB.2005.87.
Grass evolution inferred from chromosomal rearrangements and geometrical and statistical features in RNA structure.
Caetano-Anolles G
J Mol Evol. 2005; 60(5):635-52.
PMID: 15983872
DOI: 10.1007/s00239-004-0244-z.
Universal sharing patterns in proteomes and evolution of protein fold architecture and life.
Caetano-Anolles G, Caetano-Anolles D
J Mol Evol. 2005; 60(4):484-98.
PMID: 15883883
DOI: 10.1007/s00239-004-0221-6.