Multiple sequence alignment in phylogenetic analysis
Multiple sequence alignment is discussed in light of homology assessments in phylogenetic
research. Pairwise and multiple alignment methods are reviewed as exact and heuristic …
research. Pairwise and multiple alignment methods are reviewed as exact and heuristic …
A review of arthropod phylogeny: new data based on ribosomal DNA sequences and direct character optimization
G Giribet, C Ribera - Cladistics, 2000 - Wiley Online Library
Ribosomal gene sequence data are used to explore phylogenetic relationships among
higher arthropod groups. Sequences of 139 taxa (23 outgroup and 116 ingroup taxa) …
higher arthropod groups. Sequences of 139 taxa (23 outgroup and 116 ingroup taxa) …
Gaps as characters in sequence-based phylogenetic analyses
MP Simmons, H Ochoterena - Systematic biology, 2000 - JSTOR
In the analysis of sequence-based data matrices, the use of different methods of treating
gaps has been demonstrated to in? fluence the resulting phylogenetic hypothe? ses (eg …
gaps has been demonstrated to in? fluence the resulting phylogenetic hypothe? ses (eg …
GUIDANCE: a web server for assessing alignment confidence scores
Evaluating the accuracy of multiple sequence alignment (MSA) is critical for virtually every
comparative sequence analysis that uses an MSA as input. Here we present the GUIDANCE …
comparative sequence analysis that uses an MSA as input. Here we present the GUIDANCE …
Molecular phylogenetics and evolution of Orchidinae and selected Habenariinae (Orchidaceae)
RM Bateman, PM Hollingsworth… - Botanical journal of …, 2003 - academic.oup.com
Internal transcribed spacer (ITS nuclear rDNA) data have been obtained from 190 terrestrial
orchid species, encompassing all genera and the great majority of the widely recognized …
orchid species, encompassing all genera and the great majority of the widely recognized …
Phylogeny in cryptic weevils: molecules, morphology and new genera of western Palaearctic Cryptorhynchinae (Coleoptera: Curculionidae)
JJ Astrin, PE Stüben - Invertebrate systematics, 2008 - CSIRO Publishing
A phylogeny is presented for the western Palaearctic representatives of the weevil subfamily
Cryptorhynchinae using a combination of phenotypic and genotypic characters. This …
Cryptorhynchinae using a combination of phenotypic and genotypic characters. This …
A Monte Carlo approach successfully identifies randomness in multiple sequence alignments: a more objective means of data exclusion
B Misof, K Misof - Systematic biology, 2009 - academic.oup.com
Random similarity of sequences or sequence sections can impede phylogenetic analyses or
the identification of gene homologies. Additionally, randomly similar sequences or …
the identification of gene homologies. Additionally, randomly similar sequences or …
GapCoder automates the use of indel characters in phylogenetic analysis
ND Young, J Healy - BMC bioinformatics, 2003 - Springer
Background Several ways of incorporating indels into phylogenetic analysis have been
suggested. Simple indel coding has two strengths:(1) biological realism and (2) efficiency of …
suggested. Simple indel coding has two strengths:(1) biological realism and (2) efficiency of …
Phylogeny and Systematic Position of Opiliones: A Combined Analysis of Chelicerate Relationships Using Morphological and Molecular Data1
The ordinal level phylogeny of the Arachnida and the suprafamilial level phylogeny of the
Opiliones were studied on the basis of a combined analysis of 253 morphological …
Opiliones were studied on the basis of a combined analysis of 253 morphological …
[책][B] Molecular phylogenetics of the chiropteran family Vespertilionidae
SR Hoofer - 2003 - search.proquest.com
Scope and method of study. My purpose in this study was to employ mitochondrial DNA
(mtDNA) analysis and extensive taxonomic sampling to test long-standing genealogic …
(mtDNA) analysis and extensive taxonomic sampling to test long-standing genealogic …