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Multiple sequence alignment for phylogenetic purposes
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Outgoing claims: the papers this work cites, builds on, or argues with.
inferredcites →https://doi.org/10.1002/(sici)1097-0134(20000701)40:1<6::aid-prot30>3.0.co;2-7openalex-snapshot
Large-scale comparison of protein sequence alignment algorithms with structure alignments
inferredcites →https://doi.org/10.1002/1097-0134(20001101)41:2<224::aid-prot70>3.0.co;2-zopenalex-snapshot
Rapid automatic detection and alignment of repeats in protein sequences
inferredcites →https://doi.org/10.1002/1521-1878(200009)22:9<846::aid-bies10>3.0.co;2-ropenalex-snapshot
Defining sameness: historical, biological, and generative homology
inferredcites →https://doi.org/10.1002/ajpa.1330940109openalex-snapshot
A critique of homology as a morphological concept
inferredcites →https://doi.org/10.1002/j.1460-2075.1995.tb00174.xopenalex-snapshot
The 3‐D structure of a zinc metallo‐beta‐lactamase from Bacillus cereus reveals a new type of protein fold.
inferredcites →https://doi.org/10.1002/prot.10163openalex-snapshot
Comparison of sequence and structure alignments for protein domains
inferredcites →https://doi.org/10.1002/prot.10508openalex-snapshot
Gaps in structurally similar proteins: Towards improvement of multiple sequence alignment
inferredcites →https://doi.org/10.1002/prot.20184openalex-snapshot
Profile–profile methods provide improved fold‐recognition: A study of different profile–profile alignment methods
inferredcites →https://doi.org/10.1002/prot.20284openalex-snapshot
Relationship between multiple sequence alignments and quality of protein comparative models
inferredcites →https://doi.org/10.1002/prot.20527openalex-snapshot
BAliBASE 3.0: Latest developments of the multiple sequence alignment benchmark
inferredcites →https://doi.org/10.1002/prot.20957openalex-snapshot
Global multiple‐sequence alignment with repeats
inferredcites →https://doi.org/10.1002/prot.340090304openalex-snapshot
A workbench for multiple alignment construction and analysis
inferredcites →https://doi.org/10.1006/clad.1993.1015openalex-snapshot
A NOTE OF MOLECULAR HOMOLOGY: MULTIPLE PATTERNS FROM SINGLE DATASETS
inferredcites →https://doi.org/10.1006/clad.1996.0001openalex-snapshot
OPTIMIZATION ALIGNMENT: THE END OF MULTIPLE SEQUENCE ALIGNMENT IN PHYLOGENETICS?
inferredcites →https://doi.org/10.1006/clad.1999.0115openalex-snapshot
Fixed Character States and the Optimization of Molecular Sequence Data
inferredcites →https://doi.org/10.1006/clad.2000.0154openalex-snapshot
Homology and the Optimization of DNA Sequence Data
inferredcites →https://doi.org/10.1006/clad.2000.0159openalex-snapshot
Exploring the Behavior of POY, a Program for Direct Optimization of Molecular Data
inferredcites →https://doi.org/10.1006/clad.2000.0160openalex-snapshot
Efficiency of Parallel Direct Optimization
inferredcites →https://doi.org/10.1006/fgbi.2001.1291openalex-snapshot
Outcrossing and Recombination in the Lichenized Fungus Letharia
inferredcites →https://doi.org/10.1006/jmbi.1993.1105openalex-snapshot
Empirical and Structural Models for Insertions and Deletions in the Divergent Evolution of Proteins
inferredcites →https://doi.org/10.1006/jmbi.1995.0340openalex-snapshot
An Assessment of Amino Acid Exchange Matrices in Aligning Protein Sequences: The Twilight Zone Revisited
inferredcites →https://doi.org/10.1006/jmbi.1996.0679openalex-snapshot
Significant Improvement in Accuracy of Multiple Protein Sequence Alignments by Iterative Refinement as Assessed by Reference to Structural Alignments
inferredcites →https://doi.org/10.1006/jmbi.2000.3615openalex-snapshot
Structure-based evaluation of sequence comparison and fold recognition alignment accuracy 1 1Edited by B. Honig
inferredcites →https://doi.org/10.1006/jmbi.2000.4042openalex-snapshot
T-coffee: a novel method for fast and accurate multiple sequence alignment 1 1Edited by J. Thornton
inferredcites →https://doi.org/10.1006/jmbi.2001.5187openalex-snapshot
Towards a reliable objective function for multiple sequence alignments 1 1Edited by J. Karn
inferredcites →https://doi.org/10.1006/jtbi.1994.1062openalex-snapshot
An Algorithm Combining DNA and Protein Alignment
inferredcites →https://doi.org/10.1006/meth.1997.0501openalex-snapshot
Investigating Phylogenetic Relationships within the Apicomplexa Using Sequence Data: The Search for Homology
inferredcites →https://doi.org/10.1006/mpev.1995.1028openalex-snapshot
Use of rRNA Secondary Structure in Phylogenetic Studies to Identify Homologous Positions: An Example of Alignment and Data Presentation from the Frogs
inferredcites →https://doi.org/10.1006/mpev.1996.0057openalex-snapshot
Molecular Homology Assessment and Phylogeny in the Lizard Family Opluridae (Squamata: Iguania)
inferredcites →https://doi.org/10.1006/mpev.1997.0432openalex-snapshot
Molecular Evolution and Phylogenetic Utility of the Chloroplastrpl16Intron inChusqueaand the Bambusoideae (Poaceae)
inferredcites →https://doi.org/10.1006/mpev.1998.0496openalex-snapshot
Parsimony Analysis as a Specific Kind of Homology Estimation and the Implications for Character Weighting
inferredcites →https://doi.org/10.1006/mpev.1998.0522openalex-snapshot
The Number of Multiple Alignments
inferredcites →https://doi.org/10.1006/mpev.1999.0709openalex-snapshot
How Slippage-Derived Sequences Are Incorporated into rRNA Variable-Region Secondary Structure: Implications for Phylogeny Reconstruction
inferredcites →https://doi.org/10.1006/mpev.2000.0785openalex-snapshot
Multiple Sequence Alignment in Phylogenetic Analysis
inferredcites →https://doi.org/10.1006/mpev.2001.1064openalex-snapshot
Molecular Phylogeny of Hybridizing Species from the Genus Spartina Schreb. (Poaceae)
inferredcites →https://doi.org/10.1007/11549468_133openalex-snapshot
Parallel Multiple Sequence Alignment with Decentralized Cache Support
inferredcites →https://doi.org/10.1007/11557067_23openalex-snapshot
Alignment of Tandem Repeats with Excision, Duplication, Substitution and Indels (EDSI)
inferredcites →https://doi.org/10.1007/11557067_25openalex-snapshot
Multiple Structural RNA Alignment with Lagrangian Relaxation
inferredcites →https://doi.org/10.1007/11560500_20openalex-snapshot
Fast and Accurate Structural RNA Alignment by Progressive Lagrangian Optimization
inferredcites →https://doi.org/10.1007/11732990_37openalex-snapshot
Simple and Fast Inverse Alignment
inferredcites →https://doi.org/10.1007/3-540-48452-3_8openalex-snapshot
GESTALT: Genomic Steiner Alignments
inferredcites →https://doi.org/10.1007/3-540-63220-4_59openalex-snapshot
Aligning coding DNA in the presence of frame-shift errors
inferredcites →https://doi.org/10.1007/978-3-0348-7527-1_20openalex-snapshot
Sources of ambiguity in nucleic acid sequence alignment
inferredcites →https://doi.org/10.1007/978-3-0348-8114-2_6openalex-snapshot
Relationships among metazoan phyla as inferred from 18S rRNA sequence data: a methodological approach
inferredcites →https://doi.org/10.1007/978-3-0348-8114-2_7openalex-snapshot
DNA multiple sequence alignments
inferredcites →https://doi.org/10.1007/978-3-0348-8125-8_3openalex-snapshot
Optimization Alignment:Down,Up,Error,and Improvements
inferredcites →https://doi.org/10.1007/978-3-0348-8948-3_13openalex-snapshot
Alignment characters, dynamic programming and heuristic solutions
inferredcites →https://doi.org/10.1007/978-3-540-24587-2_37openalex-snapshot
Settling the Intractability of Multiple Alignment
inferredcites →https://doi.org/10.1007/978-3-540-27866-5_135openalex-snapshot
Cache-Based Parallelization of Multiple Sequence Alignment Problem
inferredcites →https://doi.org/10.1007/bf00160274openalex-snapshot
The posterior probability distribution of alignments and its application to parameter estimation of evolutionary trees and to optimization of multiple alignments
inferredcites →https://doi.org/10.1007/bf00163848openalex-snapshot
Inching toward reality: An improved likelihood model of sequence evolution
inferredcites →https://doi.org/10.1007/bf00164032openalex-snapshot
The size distribution of insertions and deletions in human and rodent pseudogenes suggests the logarithmic gap penalty for sequence alignment
inferredcites →https://doi.org/10.1007/bf00931849openalex-snapshot
Effects of sequence alignment on the phylogeny ofSarcocystis deduced from 18S rDNA sequences
inferredcites →https://doi.org/10.1007/bf02101114openalex-snapshot
Molecular homology and DNA hybridization
inferredcites →https://doi.org/10.1007/bf02193625openalex-snapshot
An evolutionary model for maximum likelihood alignment of DNA sequences
inferredcites →https://doi.org/10.1007/bf02257378openalex-snapshot
The alignment of sets of sequences and the construction of phyletic trees: An integrated method
inferredcites →https://doi.org/10.1007/bf02462264openalex-snapshot
Consistency of optimal sequence alignments
inferredcites →https://doi.org/10.1007/bf02603120openalex-snapshot
Progressive sequence alignment as a prerequisitetto correct phylogenetic trees
inferredcites →https://doi.org/10.1007/bf02715889openalex-snapshot
Exact tandem repeats analyzer (E-TRA): A new program for DNA sequence mining
inferredcites →https://doi.org/10.1007/bfb0033210openalex-snapshot
A clustering approach to Generalized Tree Alignment with application to Alu repeats
inferredcites →https://doi.org/10.1007/pl00006536openalex-snapshot
Estimating the Contributions of Selection and Self-Organization in RNA Secondary Structure
inferredcites →https://doi.org/10.1007/pl00013151openalex-snapshot
Sensitivity of Patterns of Molecular Evolution to Alterations in Methodology: A Critique of Hughes and Yeager
inferredcites →https://doi.org/10.1007/s00239-001-0001-5openalex-snapshot
Stretch Coding and Block Coding: Two New Strategies to Represent Questionably Aligned DNA Sequences
inferredcites →https://doi.org/10.1007/s00239-001-0016-yopenalex-snapshot
Maximum Likelihood Methods Reveal Conservation of Function Among Closely Related Kinesin Families
inferredcites →https://doi.org/10.1007/s00239-004-0246-xopenalex-snapshot
Predicted Secondary Structure for 28S and 18S rRNA from Ichneumonoidea (Insecta: Hymenoptera: Apocrita): Impact on Sequence Alignment and Phylogeny Estimation
inferredcites →https://doi.org/10.1007/s002940050130openalex-snapshot
Hairpins create minute inversions in non-coding regions of chloroplast DNA
inferredcites →https://doi.org/10.1016/0022-2836(82)90398-9openalex-snapshot
An improved algorithm for matching biological sequences
inferredcites →https://doi.org/10.1016/0022-2836(86)90289-5openalex-snapshot
Maximum likelihood alignment of DNA sequences
inferredcites →https://doi.org/10.1016/0022-2836(86)90308-6openalex-snapshot
Identification of protein sequence homology by consensus template alignment
inferredcites →https://doi.org/10.1016/0022-2836(87)90316-0openalex-snapshot
A strategy for the rapid multiple alignment of protein sequences
inferredcites →https://doi.org/10.1016/0022-2836(92)91008-dopenalex-snapshot
Analysis of insertions/deletions in protein structures
inferredcites →https://doi.org/10.1016/0076-6879(90)83041-7openalex-snapshot
[39] Unified approach to alignment and phylogenies
inferredcites →https://doi.org/10.1016/0076-6879(90)83044-aopenalex-snapshot
[42] Phylogenetic relationships from three-dimensional protein structures
inferredcites →https://doi.org/10.1016/0092-8674(87)90116-4openalex-snapshot
Nonhomologous views of a terminology muddle
inferredcites →https://doi.org/10.1016/0092-8674(87)90322-9openalex-snapshot
“Homology” in proteins and nucleic acids: A terminology muddle and a way out of it
inferredcites →https://doi.org/10.1016/0167-4781(94)90028-0openalex-snapshot
Mosquito large subunit ribosomal RNA: simultaneous alignment of primary and secondary structure
inferredcites →https://doi.org/10.1016/0196-8858(91)90017-dopenalex-snapshot
A time-efficient, linear-space local similarity algorithm
inferredcites →https://doi.org/10.1016/0378-1119(96)00215-6openalex-snapshot
Secondary structures and features of the 18S, 5.8S and 26S ribosomal RNAs from the Apicomplexan parasite Toxoplasma gondii
inferredcites →https://doi.org/10.1016/b978-0-08-057430-1.50016-0openalex-snapshot
HOMOLOGY IN MOLECULAR BIOLOGY
inferredcites →https://doi.org/10.1016/b978-0-08-057430-1.50018-4openalex-snapshot
COMPLEXITY AND HOMOLOGY IN PLANTS
inferredcites →https://doi.org/10.1016/b978-012730055-9/50024-0openalex-snapshot
Homology and DNA Sequence Data
inferredcites →https://doi.org/10.1016/j.compbiolchem.2004.02.001openalex-snapshot
An adaptive and iterative algorithm for refining multiple sequence alignment
inferredcites →https://doi.org/10.1016/j.ijpara.2004.09.006openalex-snapshot
Functional analysis and localisation of a delta-class glutathione S-transferase from Sarcoptes scabiei
inferredcites →https://doi.org/10.1016/j.jbi.2005.11.005openalex-snapshot
Homology assessment and molecular sequence alignment
inferredcites →https://doi.org/10.1016/j.jmb.2003.08.015openalex-snapshot
Sequence Alignments and Pair Hidden Markov Models Using Evolutionary History
inferredcites →https://doi.org/10.1016/j.jmb.2004.04.058openalex-snapshot
3DCoffee: Combining Protein Sequences and Structures within Multiple Sequence Alignments
inferredcites →https://doi.org/10.1016/j.jmb.2004.05.045openalex-snapshot
Empirical Analysis of Protein Insertions and Deletions Determining Parameters for the Correct Placement of Gaps in Protein Sequence Alignments
inferredcites →https://doi.org/10.1016/j.jmb.2004.12.032openalex-snapshot
Comprehensive Evaluation of Protein Structure Alignment Methods: Scoring by Geometric Measures
inferredcites →https://doi.org/10.1016/j.sbi.2005.04.002openalex-snapshot
Multiple sequence alignments
inferredcites →https://doi.org/10.1016/j.sbi.2005.05.005openalex-snapshot
The limits of protein sequence comparison?
inferredcites →https://doi.org/10.1016/j.sbi.2006.04.004openalex-snapshot
Multiple sequence alignment
inferredcites →https://doi.org/10.1016/j.tig.2006.02.005openalex-snapshot
Differences between pair-wise and multi-sequence alignment methods affect vertebrate genome comparisons
inferredcites →https://doi.org/10.1016/j.ympev.2003.10.008openalex-snapshot
Independence of alignment and tree search
inferredcites →https://doi.org/10.1016/j.ympev.2004.04.011openalex-snapshot
Relative character-state space, amount of potential phylogenetic information, and heterogeneity of nucleotide and amino acid characters
inferredcites →https://doi.org/10.1016/j.ympev.2004.08.004openalex-snapshot
Characterizing regions of ambiguous alignment caused by the expansion and contraction of hairpin-stem loops in ribosomal RNA molecules
inferredcites →https://doi.org/10.1016/j.ympev.2005.11.011openalex-snapshot
Comparing alignment methods for inferring the history of the new world lizard genus Mabuya (Squamata: Scincidae)
inferredcites →https://doi.org/10.1016/s0014-5793(02)03189-7openalex-snapshot
Quality assessment of multiple alignment programs
inferredcites →https://doi.org/10.1016/s0020-7519(02)00197-2openalex-snapshot
Host adaptation and host–parasite co-evolution in Cryptosporidium: implications for taxonomy and public health
inferredcites →https://doi.org/10.1016/s0022-2836(02)01451-1openalex-snapshot
Automatic Methods for Predicting Functionally Important Residues
inferredcites →https://doi.org/10.1016/s0022-2836(05)80006-3openalex-snapshot
Sequence alignment and penalty choice
inferredcites →https://doi.org/10.1016/s0065-227x(99)80007-0openalex-snapshot
Multiple sequence alignment: Algorithms and applications
inferredcites →https://doi.org/10.1016/s0065-308x(06)63001-7openalex-snapshot
Phylogenetic Analyses of Parasites in the New Millennium
inferredcites →https://doi.org/10.1016/s0076-6879(96)66022-4openalex-snapshot
[20] Multiple protein sequence alignment: Algorithms and gap insertion
inferredcites →https://doi.org/10.1016/s0076-6879(96)66024-8openalex-snapshot
[22] Using CLUSTAL for multiple sequence alignments
inferredcites →https://doi.org/10.1016/s0076-6879(96)66025-xopenalex-snapshot
[23] Combined DNA and protein alignment
inferredcites →https://doi.org/10.1016/s0076-6879(96)66042-xopenalex-snapshot
[40] Converting sequence block alignments into structural insights
inferredcites →https://doi.org/10.1016/s0092-8240(05)80077-1openalex-snapshot
A survey of multiple sequence comparison methods
inferredcites →https://doi.org/10.1016/s0092-8674(02)00727-4openalex-snapshot
Computational Genomics of Noncoding RNA Genes
inferredcites →https://doi.org/10.1016/s0097-8485(99)00012-1openalex-snapshot
Two strategies for sequence comparison: profile-preprocessed and secondary structure-induced multiple alignment
inferredcites →https://doi.org/10.1016/s0166-218x(02)00288-3openalex-snapshot
Weighted sequence graphs: boosting iterated dynamic programming using locally suboptimal solutions
inferredcites →https://doi.org/10.1016/s0166-6851(97)00111-4openalex-snapshot
Evolution of the genus Leishmania revealed by comparison of DNA and RNA polymerase gene sequences1Note: Nucleotide sequence data reported in this paper have been submitted to the GenBank™ data base with the accession numbers: POLA/RPOIILS (AF009134/AF009153, Leishmania adleri); (AF009135/NS,…
inferredcites →https://doi.org/10.1016/s0169-5347(01)02313-8openalex-snapshot
Unalignable sequences and molecular evolution
inferredcites →https://doi.org/10.1016/s0304-3975(99)00324-2openalex-snapshot
The complexity of multiple sequence alignment with SP-score that is a metric
inferredcites →https://doi.org/10.1016/s0378-1119(01)00461-9openalex-snapshot
Multiple alignment of complete sequences (MACS) in the post-genomic era
inferredcites →https://doi.org/10.1016/s0378-1119(97)00398-3openalex-snapshot
Patterns and rates of indel evolution in processed pseudogenes from humans and murids
inferredcites →https://doi.org/10.1016/s0958-1669(96)80124-8openalex-snapshot
Pitfalls of protein sequence analysis
inferredcites →https://doi.org/10.1016/s0959-440x(02)00339-1openalex-snapshot
The accuracy of ribosomal RNA comparative structure models
inferredcites →https://doi.org/10.1016/s1055-7903(02)00366-4openalex-snapshot
The effects of increasing genetic distance on alignment of, and tree construction from, rDNA internal transcribed spacer sequences
inferredcites →https://doi.org/10.1016/s1055-7903(03)00206-9openalex-snapshot
An empirical test of the treatment of indels during optimization alignment based on the phylogeny of the genus Secale (Poaceae)
inferredcites →https://doi.org/10.1017/s0033583500003620openalex-snapshot
RNA secondary structure: physical and computational aspects
inferredcites →https://doi.org/10.1017/s1355838200001047openalex-snapshot
Search for characteristic structural features of mammalian mitochondrial tRNAs
inferredcites →https://doi.org/10.1023/a:1009841927822openalex-snapshot
An Approximation Algorithm for Alignment of Multiple Sequences using Motif Discovery
inferredcites →https://doi.org/10.1023/a:1009889710983openalex-snapshot
Aligning DNA Sequences to Minimize the Change in Protein
inferredcites →https://doi.org/10.1038/304412a0openalex-snapshot
Nucleotide polymorphism at the alcohol dehydrogenase locus of Drosophila melanogaster
inferredcites →https://doi.org/10.1038/35055536openalex-snapshot
Complete mitochondrial genome sequences of two extinct moas clarify ratite evolution
inferredcites →https://doi.org/10.1038/newbio245232a0openalex-snapshot
Evolution of 5S RNA and the Non-randomness of Base Replacement
inferredcites →https://doi.org/10.1046/j.1365-2583.2000.00211.xopenalex-snapshot
Subset partitioning of the ribosomal DNA small subunit and its effects on the phylogeny of the Anopheles punctulatus group
inferredcites →https://doi.org/10.1046/j.1529-8817.1999.3520433.xopenalex-snapshot
SUBMISSION AND RETRIEVAL OF AN ALIGNED SET OF NUCLEIC ACID SEQUENCES
inferredcites →https://doi.org/10.1071/sb98027openalex-snapshot
Phylogeny of the Proteaceae based on atpB and atpB - rbcL intergenic spacer region sequences
inferredcites →https://doi.org/10.1073/pnas.011577898openalex-snapshot
Combining multiple structure and sequence alignments to improve sequence detection and alignment: Application to the SH2 domains of Janus kinases
inferredcites →https://doi.org/10.1073/pnas.0330964100openalex-snapshot
Majority of divergence between closely related DNA samples is due to indels
inferredcites →https://doi.org/10.1073/pnas.0409137102openalex-snapshot
An algorithm for progressive multiple alignment of sequences with insertions
inferredcites →https://doi.org/10.1073/pnas.0504801102openalex-snapshot
Mind the gaps: Progress in progressive alignment
inferredcites →https://doi.org/10.1073/pnas.130193297openalex-snapshot
Gene genealogies reveal global phylogeographic structure and reproductive isolation among lineages of Fusarium graminearum , the fungus causing wheat scab
inferredcites →https://doi.org/10.1073/pnas.83.14.5155openalex-snapshot
A measure of the similarity of sets of sequences not requiring sequence alignment.
inferredcites →https://doi.org/10.1073/pnas.95.11.6073openalex-snapshot
Assessing sequence comparison methods with reliable structurally identified distant evolutionary relationships
inferredcites →https://doi.org/10.1078/1439-6092-00051openalex-snapshot
Testing and weighting characters
inferredcites →https://doi.org/10.1080/0028825x.1993.10419499openalex-snapshot
The expected number of matches in optimal global sequence alignments
inferredcites →https://doi.org/10.1080/106351501753462803openalex-snapshot
Exploring Data Interaction and Nucleotide Alignment in a Multiple Gene Analysis of Ips (Coleoptera: Scolytinae)
inferredcites →https://doi.org/10.1080/106351501753462894openalex-snapshot
Sequence Alignment of 18S Ribosomal RNA and the Basal Relationships of Adephagan Beetles: Evidence for Monophyly of Aquatic Families and the Placement of Trachypachidae
inferredcites →https://doi.org/10.1080/10635150290069896openalex-snapshot
Robustness of Ancestral State Estimates: Evolution of Life History Strategy in Ichneumonoid Parasitoids
inferredcites →https://doi.org/10.1080/10635150490445922openalex-snapshot
Aligned 18S and Insect Phylogeny
inferredcites →https://doi.org/10.1080/10635150500541730openalex-snapshot
Multiple Sequence Alignment Accuracy and Phylogenetic Inference
inferredcites →https://doi.org/10.1080/10635150590947041openalex-snapshot
Joint Bayesian Estimation of Alignment and Phylogeny
inferredcites →https://doi.org/10.1080/10635150590950371openalex-snapshot
Simultaneous Statistical Multiple Alignment and Phylogeny Reconstruction
inferredcites →https://doi.org/10.1080/10635150601156305openalex-snapshot
Opinions on Multiple Sequence Alignment, and an Empirical Comparison of Repeatability and Accuracy between POY and Structural Alignment
inferredcites →https://doi.org/10.1080/106351598260941openalex-snapshot
Influence of Alignment on the mtDNA Phylogeny of Cetacea: Questionable Support for a Mysticeti/Physeteroidea Clade
inferredcites →https://doi.org/10.1086/317583openalex-snapshot
Microstructural Changes in Noncoding Chloroplast DNA: Interpretation, Evolution, and Utility of Indels and Inversions in Basal Angiosperm Phylogenetic Inference
inferredcites →https://doi.org/10.1089/10665270050081513openalex-snapshot
Evaluation Measures of Multiple Sequence Alignments
inferredcites →https://doi.org/10.1089/106652701753307511openalex-snapshot
Computational Complexity of Multiple Sequence Alignment with SP-Score
inferredcites →https://doi.org/10.1089/cmb.1994.1.337openalex-snapshot
On the Complexity of Multiple Sequence Alignment
inferredcites →https://doi.org/10.1089/cmb.1995.2.459openalex-snapshot
Improving the Practical Space and Time Efficiency of the Shortest-Paths Approach to Sum-of-Pairs Multiple Sequence Alignment
inferredcites →https://doi.org/10.1089/cmb.1995.2.509openalex-snapshot
A Simplified Proof of the NP- and MAX SNP-Hardness of Multiple Sequence Tree Alignment
inferredcites →https://doi.org/10.1089/cmb.1996.3.563openalex-snapshot
Progressive Multiple Alignment with Constraints
inferredcites →https://doi.org/10.1089/cmb.1997.4.23openalex-snapshot
Towards Integration of Multiple Alignment and Phylogenetic Tree Construction
inferredcites →https://doi.org/10.1089/cmb.1997.4.351openalex-snapshot
Sequence Alignment with Tandem Duplication
inferredcites →https://doi.org/10.1089/cmb.1997.4.415openalex-snapshot
The Deferred Path Heuristic for the Generalized Tree Alignment Problem
inferredcites →https://doi.org/10.1089/cmb.1998.5.173openalex-snapshot
Sequence Alignment in Molecular Biology
inferredcites →https://doi.org/10.1089/cmb.1998.5.493openalex-snapshot
Dynamic Programming Alignment Accuracy
inferredcites →https://doi.org/10.1089/cmb.1998.5.517openalex-snapshot
A Polyhedral Approach to RNA Sequence Structure Alignment
inferredcites →https://doi.org/10.1089/cmb.2005.12.928openalex-snapshot
Finding Approximate Tandem Repeats in Genomic Sequences
inferredcites →https://doi.org/10.1089/cmb.2006.13.283openalex-snapshot
Consensus Folding of Unaligned RNA Sequences Revisited
inferredcites →https://doi.org/10.1089/cmb.2006.13.309openalex-snapshot
A Polynomial Time Solvable Formulation of Multiple Sequence Alignment
inferredcites →https://doi.org/10.1093/acprof:oso/9780199297306.003.0005openalex-snapshot
Alignment, dynamic homology, and optimization
inferredcites →https://doi.org/10.1093/acprof:oso/9780199297306.003.0006openalex-snapshot
Parsimony and the problem of inapplicables in sequence data
inferredcites →https://doi.org/10.1093/bib/4.2.105openalex-snapshot
An applications-focused review of comparative genomics tools: Capabilities, limitations and future challenges
inferredcites →https://doi.org/10.1093/bib/6.1.6openalex-snapshot
The many faces of sequence alignment
inferredcites →https://doi.org/10.1093/bioinformatics/10.4.389openalex-snapshot
RNAlign program: alignment of RNA sequences using both primary and secondary structures
inferredcites →https://doi.org/10.1093/bioinformatics/11.1.13openalex-snapshot
Comprehensive study on iterative algorithms of multiple sequence alignment
inferredcites →https://doi.org/10.1093/bioinformatics/14.1.25openalex-snapshot
Bayesian adaptive sequence alignment algorithms.
inferredcites →https://doi.org/10.1093/bioinformatics/14.2.157openalex-snapshot
Rose: generating sequence families.
inferredcites →https://doi.org/10.1093/bioinformatics/14.4.332openalex-snapshot
Optimization of ribosomal RNA profile alignments.
inferredcites →https://doi.org/10.1093/bioinformatics/14.4.357openalex-snapshot
Comparative analysis of seven multiple protein sequence alignment servers: clues to enhance reliability of predictions.
inferredcites →https://doi.org/10.1093/bioinformatics/14.5.407openalex-snapshot
COFFEE: an objective function for multiple sequence alignments.
inferredcites →https://doi.org/10.1093/bioinformatics/14.9.755openalex-snapshot
Profile hidden Markov models.
inferredcites →https://doi.org/10.1093/bioinformatics/15.1.87openalex-snapshot
BAliBASE: a benchmark alignment database for the evaluation of multiple alignment programs.
inferredcites →https://doi.org/10.1093/bioinformatics/15.10.862openalex-snapshot
MULTICLUSTAL: a systematic method for surveying Clustal W alignment parameters.
inferredcites →https://doi.org/10.1093/bioinformatics/15.2.122openalex-snapshot
Combining many multiple alignments in one improved alignment.
inferredcites →https://doi.org/10.1093/bioinformatics/15.3.211openalex-snapshot
DIALIGN 2: improvement of the segment-to-segment approach to multiple sequence alignment.
inferredcites →https://doi.org/10.1093/bioinformatics/15.4.341openalex-snapshot
MIAH: automatic alignment of eukaryotic SSU rRNAs.
inferredcites →https://doi.org/10.1093/bioinformatics/15.5.426openalex-snapshot
REPuter: fast computation of maximal repeats in complete genomes.
inferredcites →https://doi.org/10.1093/bioinformatics/16.9.808openalex-snapshot
An iterative method for faster sum-of-pairs multiple sequence alignment
inferredcites →https://doi.org/10.1093/bioinformatics/17.4.377openalex-snapshot
STRAP: editor for STRuctural Alignments of Proteins
inferredcites →https://doi.org/10.1093/bioinformatics/17.5.391openalex-snapshot
Comparison of genomic DNA sequences: solved and unsolved problems
inferredcites →https://doi.org/10.1093/bioinformatics/17.6.573openalex-snapshot
SOAP, cleaning multiple alignments from unstable blocks
inferredcites →https://doi.org/10.1093/bioinformatics/17.8.713openalex-snapshot
Evaluation of protein multiple alignments by SAM-T99 using the BAliBASE multiple alignment test set
inferredcites →https://doi.org/10.1093/bioinformatics/18.11.1500openalex-snapshot
Empirical determination of effective gap penalties for sequence comparison
inferredcites →https://doi.org/10.1093/bioinformatics/18.4.634openalex-snapshot
TROLL—Tandem Repeat Occurrence Locator
inferredcites →https://doi.org/10.1093/bioinformatics/18.5.763openalex-snapshot
EMBL-Align: a new public nucleotide and amino acid multiple sequence alignment database
showing the first 200 of 381 · page through all 381
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
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Revision of the Western Palaearctic Diplazontinae (Hymenoptera, Ichneumonidae)
inferred← citeshttps://doi.org/10.5852/ejt.2017.283zenodo-depositor-declared
Pitfalls in supermatrix phylogenomics
inferred← citeshttps://doi.org/10.5852/ejt.2021.736.1253zenodo-depositor-declared
Bopopia, a new monotypic genus of Gesneriaceae (Gesnerioideae, Coronanthereae) from New Caledonia
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Rare and widespread: integrating Bayesian MCMC approaches, Sanger sequencing and Hyb‐Seq phylogenomics to reconstruct the origin of the enigmatic Rand Flora genus Camptoloma
inferred← citeshttps://doi.org/10.1002/ajb2.1775openalex-snapshot
Plastid phylogenomics of the Gynoxoid group (Senecioneae, Asteraceae) highlights the importance of motif‐based sequence alignment amid low genetic distances
inferred← citeshttps://doi.org/10.1002/pro.4551openalex-snapshot
Topiary: Pruning the manual labor from ancestral sequence reconstruction
inferred← citeshttps://doi.org/10.1002/tax.12280openalex-snapshot
Circumscription and phylogenetic position of Ligularia sect. Stenostegia (Asteraceae: Senecioneae) based on morphological, cytological, and molecular phylogenetic evidence
inferred← citeshttps://doi.org/10.1002/tax.573010openalex-snapshot
Phylogenetic evidence for the generic circumscription of Cineraria L. (Asteraceae‐Senecioneae)
inferred← citeshttps://doi.org/10.1002/tax.596005openalex-snapshot
Phylogeny of subtribe Gentianinae (Gentianaceae): Biogeographic inferences despite limitations in temporal calibration points
inferred← citeshttps://doi.org/10.1002/tax.613012openalex-snapshot
Phylogenetic placement, delimitation, and relationships among genera of the enigmatic Nelsonioideae (Lamiales: Acanthaceae)
inferred← citeshttps://doi.org/10.1002/tax.615008openalex-snapshot
Straightening out the screwpines: A first step in understanding phylogenetic relationships within Pandanaceae
inferred← citeshttps://doi.org/10.1007/978-1-0716-1036-7_17openalex-snapshot
Revisiting Evaluation of Multiple Sequence Alignment Methods
inferred← citeshttps://doi.org/10.1007/978-1-4471-5298-9_6openalex-snapshot
Large-Scale Multiple Sequence Alignment and Phylogeny Estimation
inferred← citeshttps://doi.org/10.1007/978-1-59745-251-9_3openalex-snapshot
Multiple Alignment of DNA Sequences with MAFFT
inferred← citeshttps://doi.org/10.1007/978-1-59745-398-1_25openalex-snapshot
Protein Multiple Sequence Alignment
inferred← citeshttps://doi.org/10.1007/s00251-020-01191-5openalex-snapshot
A method for making alignments of related protein sequences that share very little similarity; shark interleukin 2 as an example
inferred← citeshttps://doi.org/10.1007/s00606-008-0031-1openalex-snapshot
Non-coding nuclear DNA markers in phylogenetic reconstruction
inferred← citeshttps://doi.org/10.1007/s00606-008-0071-6openalex-snapshot
Phylogenetic models and model selection for noncoding DNA
inferred← citeshttps://doi.org/10.1007/s00606-008-0072-5openalex-snapshot
A framework for phylogenetic sequence alignment
inferred← citeshttps://doi.org/10.1007/s00606-008-0095-yopenalex-snapshot
Homology in coding and non-coding DNA sequences: a parsimony perspective
inferred← citeshttps://doi.org/10.1007/s00606-009-0162-zopenalex-snapshot
Malagasy Dracaena Vand. ex L. (Ruscaceae): an investigation of discrepancies between morphological features and spatial genetic structure at a small evolutionary scale
inferred← citeshttps://doi.org/10.1007/s00606-011-0526-zopenalex-snapshot
Sequence characteristics and phylogenetic implications of the nrDNA internal transcribed spacers (ITS) in the genus Nymphaea with focus on some Indian representatives
inferred← citeshttps://doi.org/10.1007/s00606-026-02004-0openalex-snapshot
Oplonia doceana sp. nov. (Acanthaceae), from the Doce River basin: first record of the genus for Brazil and insights into Graptophyllinae generic delimitation
inferred← citeshttps://doi.org/10.1007/s10142-026-01963-4openalex-snapshot
Genomic insights into the probiotic potential of dairy-associated Saccharomyces cerevisiae WUT3 and WUT151 strains
inferred← citeshttps://doi.org/10.1007/s10722-015-0242-6openalex-snapshot
Combining conservative and variable markers to infer the evolutionary history of Prunus subgen. Amygdalus s.l. under domestication
inferred← citeshttps://doi.org/10.1007/s11557-009-0594-4openalex-snapshot
Delimitation of Ophiostoma quercus and its synonyms using multiple gene phylogenies
inferred← citeshttps://doi.org/10.1007/s12225-025-10320-wopenalex-snapshot
Cryptacanthus: a new genus of Acanthaceae from the Guineo-Congolian forests of tropical Africa
inferred← citeshttps://doi.org/10.1016/b978-0-12-384890-1.00008-xopenalex-snapshot
Phylogenetic Analysis of Pathogens
inferred← citeshttps://doi.org/10.1016/b978-0-12-417165-7.00003-9openalex-snapshot
Nature, Evolution and Characterisation of Rhizospheric Chemical Exudates Affecting Root Herbivores
inferred← citeshttps://doi.org/10.1016/b978-0-12-799942-5.00008-1openalex-snapshot
Phylogenetic Analysis of Pathogens
inferred← citeshttps://doi.org/10.1016/bs.mie.2022.03.040openalex-snapshot
Computational tools and resources for pseudokinase research
inferred← citeshttps://doi.org/10.1016/c2012-0-03274-7openalex-snapshot
Behaviour and Physiology of Root Herbivores
inferred← citeshttps://doi.org/10.1016/j.anbehav.2011.07.043openalex-snapshot
Cleaning wrasse species vary with respect to dependency on the mutualism and behavioural adaptations in interactions
inferred← citeshttps://doi.org/10.1016/j.biocontrol.2023.105291openalex-snapshot
Know thy enemy: Investigating genetic contributions from putative parents of invasive Nymphaea mexicana hybrids in South Africa as part of efforts to develop biological control
inferred← citeshttps://doi.org/10.1016/j.ejar.2025.10.002openalex-snapshot
Genetic characterization of seven clownfish species from the Jatinegara ornamental fish market using 16S rRNA DNA barcoding
inferred← citeshttps://doi.org/10.1016/j.pnsc.2009.03.005openalex-snapshot
Monophyly of the ring-forming group in Diplopoda (Myriapoda, Arthropoda) based on SSU and LSU ribosomal RNA sequences
inferred← citeshttps://doi.org/10.1016/j.pt.2009.05.010openalex-snapshot
Evolution of the Apicomplexa: where are we now?
inferred← citeshttps://doi.org/10.1016/j.sajb.2013.08.005openalex-snapshot
Warneckea parvifolia (Melastomataceae–Olisbeoideae), a new “sand-forest” endemic from northeastern KwaZulu-Natal (South Africa) and southernmost Mozambique, and a phylogenetic analysis of eastern and southern African representatives of W. section Warneckea
inferred← citeshttps://doi.org/10.1016/j.tig.2007.08.007openalex-snapshot
A reality check for alignments and trees
inferred← citeshttps://doi.org/10.1016/j.ympev.2008.08.012openalex-snapshot
The Muscoidea (Diptera: Calyptratae) are paraphyletic: Evidence from four mitochondrial and four nuclear genes
inferred← citeshttps://doi.org/10.1016/j.ympev.2009.01.012openalex-snapshot
Plastid and nuclear DNA markers reveal intricate relationships at subfamilial and tribal levels in the soapberry family (Sapindaceae)
inferred← citeshttps://doi.org/10.1016/j.ympev.2009.12.024openalex-snapshot
Phylogeny of the bristle worm family Eunicidae (Eunicida, Annelida) and the phylogenetic utility of noncongruent 16S, COI and 18S in combined analyses
inferred← citeshttps://doi.org/10.1016/j.ympev.2010.02.005openalex-snapshot
Phylogeny and evolution of the Meliphagoidea, the largest radiation of Australasian songbirds
inferred← citeshttps://doi.org/10.1016/j.ympev.2010.03.032openalex-snapshot
Inference of molecular homology and sequence alignment by direct optimization
inferred← citeshttps://doi.org/10.1016/j.ympev.2010.11.009openalex-snapshot
Phylogenetics and phylogeography of the monocot genus Baldellia (Alismataceae): Mediterranean refugia, suture zones and implications for conservation
inferred← citeshttps://doi.org/10.1016/j.ympev.2012.01.005openalex-snapshot
Phylogenetic analyses of morphological evolution in the gametophyte and sporophyte generations of the moss order Hookeriales (Bryopsida)
inferred← citeshttps://doi.org/10.1016/j.ympev.2012.05.008openalex-snapshot
A molecular phylogeny of the Lepidozia generic complex supports re-circumscription of the Lepidozioideae
inferred← citeshttps://doi.org/10.1016/j.ympev.2012.05.033openalex-snapshot
Molecular phylogeny of the arthrostylidioid bamboos (Poaceae: Bambusoideae: Bambuseae: Arthrostylidiinae) and new genus Didymogonyx
inferred← citeshttps://doi.org/10.1016/j.ympev.2012.10.023openalex-snapshot
Incorporating indels as phylogenetic characters: Impact for interfamilial relationships within Arctoidea (Mammalia: Carnivora)
inferred← citeshttps://doi.org/10.1016/j.ympev.2013.02.005openalex-snapshot
Higher level phylogenetic relationships within the bamboos (Poaceae: Bambusoideae) based on five plastid markers
inferred← citeshttps://doi.org/10.1016/j.ympev.2017.09.008openalex-snapshot
Revisiting the phylogeny of Zoanthidea (Cnidaria: Anthozoa): Staggered alignment of hypervariable sequences improves species tree inference
inferred← citeshttps://doi.org/10.1016/s2095-3119(12)60459-6openalex-snapshot
Genomic Analysis of the Natural Population of Wheat dwarf virus in Wheat from China and Hungary
inferred← citeshttps://doi.org/10.1016/s2095-3119(13)60442-6openalex-snapshot
Sequencing and Phylogenetic Analysis of Potato virus Y Liaoning Isolate in China
inferred← citeshttps://doi.org/10.1051/parasite/2008153191openalex-snapshot
Prospects for elucidating the phylogeny of the Apicomplexa
inferred← citeshttps://doi.org/10.1071/sb13027openalex-snapshot
New records, replacements, reinstatements and four new species in the Radula parvitexta and R. ventricosa species groups (Jungermanniopsida) in Australia: cases of mistaken identity
inferred← citeshttps://doi.org/10.1071/sb13035openalex-snapshot
A revision of Australian species of Radula subg. Odontoradula
inferred← citeshttps://doi.org/10.1071/sb15001openalex-snapshot
Molecular homology and multiple-sequence alignment: an analysis of concepts and practice
inferred← citeshttps://doi.org/10.1071/sb16029openalex-snapshot
The genera Chiastocaulon, Cryptoplagiochila and Pedinophyllum (Plagiochilaceae) in Australia
inferred← citeshttps://doi.org/10.1074/mcp.m114.046763openalex-snapshot
Proteomic Analysis of Interaction between a Plant Virus and Its Vector Insect Reveals New Functions of Hemipteran Cuticular Protein
inferred← citeshttps://doi.org/10.1080/01621459.2015.1054487openalex-snapshot
Bayesian Phylogenetic Inference Using a Combinatorial Sequential Monte Carlo Method
inferred← citeshttps://doi.org/10.1080/09670262.2018.1466200openalex-snapshot
Phylogenetic analysis of symbiont transmission mechanisms reveal evolutionary patterns in thermotolerance and host specificity that enhance bleaching resistance among vertically transmittedSymbiodinium
inferred← citeshttps://doi.org/10.1080/10635150701618527openalex-snapshot
Molecular Phylogenetics of the Lizard Genus Microlophus (Squamata:Tropiduridae): Aligning and Retrieving Indel Signal from Nuclear Introns
inferred← citeshttps://doi.org/10.1086/658183openalex-snapshot
New World Origins of Southwest Pacific Gesneriaceae: Multiple Movements Across and Within the South Pacific
inferred← citeshttps://doi.org/10.1093/bib/bbn013openalex-snapshot
Recent developments in the MAFFT multiple sequence alignment program
inferred← citeshttps://doi.org/10.1093/bib/bbu015openalex-snapshot
Causes, consequences and solutions of phylogenetic incongruence
inferred← citeshttps://doi.org/10.1093/bioadv/vbad024openalex-snapshot
WITCH-NG: efficient and accurate alignment of datasets with sequence length heterogeneity
inferred← citeshttps://doi.org/10.1093/bioadv/vbad052openalex-snapshot
HMMerge: an ensemble method for multiple sequence alignment
inferred← citeshttps://doi.org/10.1093/bioinformatics/btaa209openalex-snapshot
annonex2embl : automatic preparation of annotated DNA sequences for bulk submissions to ENA
inferred← citeshttps://doi.org/10.1093/bioinformatics/btq082openalex-snapshot
A min-cut algorithm for the consistency problem in multiple sequence alignment
inferred← citeshttps://doi.org/10.1093/botlinnean/box034openalex-snapshot
Generic recircumscription of Parasenecio (Asteraceae: Senecioneae) based on nuclear ribosomal and plastid DNA sequences, with descriptions of two new genera
inferred← citeshttps://doi.org/10.1093/molbev/msm176openalex-snapshot
Mind the Gaps: Evidence of Bias in Estimates of Multiple Sequence Alignments
inferred← citeshttps://doi.org/10.1093/nar/gkq442openalex-snapshot
DIALIGN-TX and multiple protein alignment using secondary structure information at GOBICS
inferred← citeshttps://doi.org/10.1093/nargab/lqaa041openalex-snapshot
A new phylogenetic protocol: dealing with model misspecification and confirmation bias in molecular phylogenetics
inferred← citeshttps://doi.org/10.1093/sysbio/syp009openalex-snapshot
Why Would Phylogeneticists Ignore Computerized Sequence Alignment?
inferred← citeshttps://doi.org/10.1101/2020.09.15.299156openalex-snapshot
Physcraper: a python package for continual update of evolutionary estimates using the Open Tree of Life
inferred← citeshttps://doi.org/10.1101/2022.05.23.493139openalex-snapshot
SALMA: Scalable ALignment using MAFFT-Add
inferred← citeshttps://doi.org/10.1109/gce.2010.5676129openalex-snapshot
Creating the CIPRES Science Gateway for inference of large phylogenetic trees
inferred← citeshttps://doi.org/10.1111/cla.12507openalex-snapshot
Benefits of alignment quality‐control processing steps and an Angiosperms353 phylogenomics pipeline applied to the Celastrales
inferred← citeshttps://doi.org/10.1111/cla.12584openalex-snapshot
On the importance of sequence alignment inspections in plastid phylogenomics – an example from revisiting the relationships of the water‐lilies
inferred← citeshttps://doi.org/10.1111/j.1095-8339.2012.01279.xopenalex-snapshot
Molecular evolution and diversification of the moss family Daltoniaceae (Hookeriales, Bryophyta) with emphasis on the unravelling of the phylogeny of Distichophyllum and its allies
inferred← citeshttps://doi.org/10.1111/j.1096-0031.2009.00272.xopenalex-snapshot
An application of dynamic homology to morphological characters: direct optimization of setae sequences and phylogeny of the family Odontellidae (Poduromorpha, Collembola)
inferred← citeshttps://doi.org/10.1111/j.1096-0031.2010.00333.xopenalex-snapshot
The deterministic effects of alignment bias in phylogenetic inference
inferred← citeshttps://doi.org/10.1111/j.1365-2915.2008.00722.xopenalex-snapshot
Genetic differences in internal transcribed spacer 1 between Dermanyssus gallinae from wild birds and domestic chickens
inferred← citeshttps://doi.org/10.1111/j.1365-294x.2009.04281.xopenalex-snapshot
Genetic structure and evolution of Alpine polyploid complexes: Ranunculus kuepferi (Ranunculaceae) as a case study
inferred← citeshttps://doi.org/10.1111/j.1365-3113.2010.00526.xopenalex-snapshot
Direct optimization overly optimizes data
inferred← citeshttps://doi.org/10.1111/j.1463-6409.2007.00306.xopenalex-snapshot
Secondary structure alignment and direct optimization of 28S rDNA sequences provide limited phylogenetic resolution in bark and ambrosia beetles (Curculionidae: Scolytinae)
inferred← citeshttps://doi.org/10.1111/j.1463-6409.2008.00360.xopenalex-snapshot
Structural alignment of 18S and 28S rDNA sequences provides insights into phylogeny of Phytophaga (Coleoptera: Curculionoidea and Chrysomeloidea)
inferred← citeshttps://doi.org/10.1111/j.1529-8817.2008.00560.xopenalex-snapshot
MOLECULAR EVIDENCE CONFIRMS SISTER RELATIONSHIP OF ARDISSONEA, CLIMACOSPHENIA, AND TOXARIUM WITHIN THE BIPOLAR CENTRIC DIATOMS (BACILLARIOPHYTA, MEDIOPHYCEAE), AND CLADISTIC ANALYSES CONFIRM THAT EXTREMELY ELONGATED SHAPE HAS ARISEN TWICE IN THE DIATOMS1
inferred← citeshttps://doi.org/10.1139/cjm-2024-0155openalex-snapshot
Carvacrol, a monoterpenoid, binds quorum sensing proteins (LasI and LasR) and swarming motility protein BswR of Pseudomonas aeruginosa, resulting in loss of pathogenicity: an in silico approach
inferred← citeshttps://doi.org/10.11606/t.41.2008.tde-16092008-181652openalex-snapshot
Filogenética de Pilocarpinae (Rutaceae)
inferred← citeshttps://doi.org/10.1186/1471-2148-10-235openalex-snapshot
Phylogenetic position of the acariform mites: sensitivity to homology assessment under total evidence
inferred← citeshttps://doi.org/10.1186/1471-2148-10-342openalex-snapshot
Molecular phylogeny of pearl oysters and their relatives (Mollusca, Bivalvia, Pterioidea)
inferred← citeshttps://doi.org/10.1186/1742-9994-7-10openalex-snapshot
Parametric and non-parametric masking of randomness in sequence alignments can be improved and leads to better resolved trees
inferred← citeshttps://doi.org/10.1186/1751-0147-49-21openalex-snapshot
A previously unidentified Chorioptes species infesting outer ear canals of moose (Alces alces): characterization of the mite and the pathology of infestation
inferred← citeshttps://doi.org/10.1186/s12859-015-0749-zopenalex-snapshot
DECIPHER: harnessing local sequence context to improve protein multiple sequence alignment
inferred← citeshttps://doi.org/10.1186/s12859-019-3292-5openalex-snapshot
LMAP_S: Lightweight Multigene Alignment and Phylogeny eStimation
inferred← citeshttps://doi.org/10.1186/s12859-020-03901-yopenalex-snapshot
NGlyAlign: an automated library building tool to align highly divergent HIV envelope sequences
inferred← citeshttps://doi.org/10.1186/s12859-021-04274-6openalex-snapshot
Physcraper: a Python package for continually updated phylogenetic trees using the Open Tree of Life
inferred← citeshttps://doi.org/10.1186/s12917-019-1890-0openalex-snapshot
Impact of alignment algorithm on the estimation of pairwise genetic similarity of porcine reproductive and respiratory syndrome virus (PRRSV)
inferred← citeshttps://doi.org/10.1186/s13015-023-00247-xopenalex-snapshot
EMMA: a new method for computing multiple sequence alignments given a constraint subset alignment
inferred← citeshttps://doi.org/10.1186/s13059-015-0688-zopenalex-snapshot
Ultra-large alignments using phylogeny-aware profiles
inferred← citeshttps://doi.org/10.1261/rna.073015.119openalex-snapshot
RNAconTest: comparing tools for noncoding RNA multiple sequence alignment based on structural consistency
inferred← citeshttps://doi.org/10.1371/journal.pone.0014376openalex-snapshot
Evolutionary History and Population Dynamics of Hepatitis E Virus
inferred← citeshttps://doi.org/10.1371/journal.pone.0027983openalex-snapshot
Phylogeography of Ostreopsis along West Pacific Coast, with Special Reference to a Novel Clade from Japan
inferred← citeshttps://doi.org/10.1600/036364410790862470openalex-snapshot
Systematics of the Aquatic Angiosperm Genus Myriophyllum (Haloragaceae)
inferred← citeshttps://doi.org/10.1600/036364411x583529openalex-snapshot
Phylogeographic Patterns in Two Southern Hemisphere Species of Calyptrochaeta (Daltoniaceae, Bryophyta)
inferred← citeshttps://doi.org/10.1600/036364415x686305openalex-snapshot
Is Sequence Alignment an Art or a Science?
inferred← citeshttps://doi.org/10.1600/036364417x696609openalex-snapshot
Pteris borneensis (Pteridaceae), a New Species from Borneo, with Re-circumscription of Pteris decrescens and Pteris parviloba
inferred← citeshttps://doi.org/10.1600/036364418x697003openalex-snapshot
The Tetramerium Lineage (Acanthaceae, Justicieae) Revisited: Phylogenetic Relationships Reveal Polyphyly of Many New World Genera Accompanied by Rampant Evolution of Floral Morphology
inferred← citeshttps://doi.org/10.1600/036364419x15562052252072openalex-snapshot
New Record of Pteris esquirolii in Taiwan, with Two Similar New Species, Pteris rugosifolia and Pteris subesquirolii
inferred← citeshttps://doi.org/10.21203/rs.3.rs-8861815/v1openalex-snapshot
Searching for Genomic Signatures of Probiotic Potential in Novel Saccharomyces Cerevisiae Strains: Comparative Analysis Against S288C and Saccharomyces cerevisiae var. boulardii
inferred← citeshttps://doi.org/10.21203/rs.3.rs-9596285/v1openalex-snapshot
Intrinsic limits of sequence-based phylogenetic inference in the family Mitoviridae
inferred← citeshttps://doi.org/10.3109/19401736.2012.668895openalex-snapshot
Interspecific variation in mitochondrial serine transfer RNA (UCN) in Euptychiina butterflies (Lepidoptera: Satyrinae): Structure and alignment
inferred← citeshttps://doi.org/10.3114/sim.2009.64.08openalex-snapshot
The molecular phylogeny of freshwater Dothideomycetes
inferred← citeshttps://doi.org/10.3389/fgene.2021.766496openalex-snapshot
An Information-Entropy Position-Weighted K-Mer Relative Measure for Whole Genome Phylogeny Reconstruction
inferred← citeshttps://doi.org/10.3390/biology12020322openalex-snapshot
Genomic Signature in Evolutionary Biology: A Review
inferred← citeshttps://doi.org/10.3390/ijms21176395openalex-snapshot
Phylogenetic Utility of rRNA ITS2 Sequence-Structure under Functional Constraint
inferred← citeshttps://doi.org/10.3732/ajb.0800048openalex-snapshot
A phylogenetic delimitation of the “ Sphagnum subsecundum complex” (Sphagnaceae, Bryophyta)
inferred← citeshttps://doi.org/10.3732/ajb.0800096openalex-snapshot
Toward a comprehensive understanding of phylogenetic relationships among lineages of Acanthaceae s.l. (Lamiales)
inferred← citeshttps://doi.org/10.3732/ajb.1000227openalex-snapshot
Molecular phylogenetics of suborder Cactineae (Caryophyllales), including insights into photosynthetic diversification and historical biogeography
inferred← citeshttps://doi.org/10.3732/ajb.1000238openalex-snapshot
Evolution and biogeography of Pleurophyllum (Astereae, Asteraceae), a small genus of megaherbs endemic to the subantarctic islands
inferred← citeshttps://doi.org/10.3732/ajb.1100103openalex-snapshot
Phylogenetic relationships of Aristida and relatives (Poaceae, Aristidoideae) based on noncoding chloroplast (trnL‐F, rpl16) and nuclear (ITS) DNA sequences
inferred← citeshttps://doi.org/10.3732/ajb.1200641openalex-snapshot
Molecular systematics of Allium subgenus Amerallium (Amaryllidaceae) in North America
inferred← citeshttps://doi.org/10.3732/ajb.1300053openalex-snapshot
Evolution of leaf blade anatomy in Allium (Amaryllidaceae) subgenus Amerallium with a focus on the North American species
inferred← citeshttps://doi.org/10.3897/asp.74.e31864openalex-snapshot
Phylogeny and species delimitation in the group Rhodocanthopus of the genus Passalus (Coleoptera: Passalidae) inferred from morphological and molecular data, with description of two new species
inferred← citeshttps://doi.org/10.3897/mycokeys.1.1966openalex-snapshot
Testing the phylogenetic utility of MCM7 in the Ascomycota
inferred← citeshttps://doi.org/10.3897/phytokeys.13.3259openalex-snapshot
Systematics and ecology of the Australasian genus Empodisma (Restionaceae) and description of a new species from peatlands in northern New Zealand
inferred← citeshttps://doi.org/10.4137/bbi.s430openalex-snapshot
Utility of Computational Methods to Identify the Apoptosis Machinery in Unicellular Eukaryotes
inferred← citeshttps://doi.org/10.4230/oasics.gcb.2013.24openalex-snapshot
Alignment-free sequence comparison with spaced k-mers
inferred← citeshttps://doi.org/10.4314/acsj.v24i1.7sopenalex-snapshot
Phylogenetic diversity of cassava green mite, Mononychellus progresivus from different geographical sites in east Africa
inferred← citeshttps://doi.org/10.48550/arxiv.1808.07717openalex-snapshot
Multiple Sequence Alignment is not a Solved Problem
inferred← citeshttps://doi.org/10.53331/teq.v4i11.5145openalex-snapshot
Filogenias: conceptos y generalidades
inferred← citeshttps://doi.org/10.5555/2346696.2346740openalex-snapshot
GPU-based high throughput multiple sequence alignment algorithm for protein data: a preliminary study
inferred← citeshttps://doi.org/10.6084/m9.figshare.13787830openalex-snapshot
Additional file 1 of NGlyAlign: an automated library building tool to align highly divergent HIV envelope sequences
inferred← citeshttps://doi.org/10.6084/m9.figshare.26651007openalex-snapshot
Additional file 1 of EMMA: a new method for computing multiple sequence alignments given a constraint subset alignment
inferred← citeshttps://doi.org/10.70675/0b3fded9z0768z4976z9f7cz8b7e4a9f1114openalex-snapshot
Phylogenomics and comparative genomics in ant-eating mammals
inferred← citeshttps://doi.org/10.7287/peerj.6142v0.1/reviews/2openalex-snapshot
Peer Review #2 of "Fully automated sequence alignment methods are comparable to, and much faster than, traditional methods in large data sets: an example with hepatitis B virus (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.6142v0.1/reviews/3openalex-snapshot
Peer Review #3 of "Fully automated sequence alignment methods are comparable to, and much faster than, traditional methods in large data sets: an example with hepatitis B virus (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.6142v0.2/reviews/2openalex-snapshot
Peer Review #2 of "Fully automated sequence alignment methods are comparable to, and much faster than, traditional methods in large data sets: an example with hepatitis B virus (v0.2)"
inferred← citeshttps://doi.org/10.7287/peerj.6142v0.3/reviews/2openalex-snapshot
Peer Review #2 of "Fully automated sequence alignment methods are comparable to, and much faster than, traditional methods in large data sets: an example with hepatitis B virus (v0.3)"
inferred← citeshttps://doi.org/10.7287/peerj.6142v0.3/reviews/3openalex-snapshot
Peer Review #3 of "Fully automated sequence alignment methods are comparable to, and much faster than, traditional methods in large data sets: an example with hepatitis B virus (v0.3)"
inferred← citeshttps://doi.org/10.7717/peerj.6142openalex-snapshot
Fully automated sequence alignment methods are comparable to, and much faster than, traditional methods in large data sets: an example with hepatitis B virus
inferred← citeshttps://doi.org/10.7751/telopea20147553openalex-snapshot
Radula subg. Radula in Australasia and the Pacific (Jungermanniopsida)
Editorial review for independent work. ICSAC — the Institute for Complexity
Science and Advanced Computing — runs a structured editorial panel for researchers
publishing outside journals, and publishes on CiteStamp rails. Submission is free
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