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Multiple sequence alignment

Multiple sequence alignment (MSA) is the process or the result of sequence alignment of three or more biological sequences, generally protein, DNA, or RNA. These alignments are used to infer evolutionary relationships via phylogenetic analysis and can highlight homologous features between sequences. Alignments highlight mutation events such as point…

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Overview

Graphing approach

Alignment methods

Optimization

Alignment visualization and quality control

Survey articles

  • Doi Doi (identifier)
  • PMID PMID (identifier)
  • PMC PMC (identifier)
  • Bibcode Bibcode (identifier)

Lecture notes, tutorials, and courses

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Multiple sequence alignment

Nodes94
Edges93
Triples171
Avg. degree1.98
Density0.021277
Components1

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Multiple sequence alignment

Top relations

related to Alignment visualization and quality control · 31
Multiple sequence alignment → An, And, Another, As, BAli-Phy, BAliBase, Bayesian, CLUSTALW, For, FSA, Furthermore, Gblocks, Heads-Or-Tails, However, In, Its, Many, MSA, MSAs, Multiple
related to Survey articles · 25
Multiple sequence alignment → Abdeddaim, Bibcode, Bioinformatics, Blackshields, Curr Opin Struct Biol, Duret, Higgins, In, Multiple, Multiple Sequence Alignment Algorithms, Notredame, Nucleic Acids Research, Oxford, Oxford University Press, Pharmacogenomics, Plewniak, PLOS Computational Biology, PMC, PMID, Poch
related to External links · 19
Multiple sequence alignment → Archived, Bioinformatics Institute, ClustalW2, DNA, ExPASy, Fast Fourier TransformKALIGN, Log-ExpectationT-coffee, MAFFT, MergeAlign, Multiple Alignment, Multiple Alignments, MUltiple Sequence Comparison, Muscle, Natural SciencesTools, Pôle Bioinformatique LyonnaisAn, Resource Page, T-Coffee, Virtual School, Wayback MachineArchived Multiple Alignment
has method · 18
Multiple sequence alignment → Both, Consensus, Goldman, In, Löytynoja, M-COFFEE, MergeAlign, Most, Nevertheless, One, PAGAN, PRANK, ProGraphMSA, Szalkowski, The, There, These, This
related to Genetic algorithms and simulated annealing · 15
Multiple sequence alignment → Genetic Algorithm, Like, MSA, MSAs, MSASA, One, RAGA, RNA, SAGA, Sequence Alignment, Simulated, Simulated Annealing, Standard, The, This
related to Dynamic programming · 13
Multiple sequence alignment → Altschul, Carrillo-Lipman Algorithm, Expressed, For, Hoeve, Hosseininasab, In, LengthNseqs, MSA, NP-complete, The, The MSA, To
related to Progressive alignment construction · 11
Multiple sequence alignment → All, Da-Fei Feng, Doolittle, FASTA, Most, MSA, Performance, Progressive, The, This, UPGMA
related to Phylogenetic use · 10
Multiple sequence alignment → For, Identity, Multiple, On, Point, Similarity, The, These, This, When
related to Non-coding multiple sequence alignment · 9
Multiple sequence alignment → Although, DNA, Hence, Non-coding DNA, Similarly, TFBS, TFBSs, This, Thus
related to Lecture notes, tutorials, and courses · 8
Multiple sequence alignment → Bioinformatics Lecture Notes, EMBL, European Molecular Biology Laboratory, Evolution, Max Planck Institute, Molecular Bioinformatics Lecture NotesMolecular, Molecular GeneticsLecture Notes, Multiple

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Important terminology

alignment sequence sequences alignments multiple msa methods used method progressive set regions program using use protein uses pairwise approach evolutionary

Entity relationships Subject–Predicate–Object triples

SubjectPredicateObjectConfidenceSrc
point mutationsinstance ofAlignments highlight mutation events0.80text
neighbor-joining or unweighted pair group method with arithmetic meaninstance ofThe initial guide tree is determined by an efficient clustering method0.80text
finding a high-quality alignment score.A variety of subtly different iteration methods have been implementedinstance ofiterative methods can return to previously calculated pairwise alignments or sub-MSAs incorporating subsets of the query sequence as a means of optimizing a general objective fu…0.80text
made available in software packagesinstance ofiterative methods can return to previously calculated pairwise alignments or sub-MSAs incorporating subsets of the query sequence as a means of optimizing a general objective fu…0.80text
detection of positive selectioninstance ofand these regions might be desirable for other purposes0.80text
Multiple sequence alignmenthas methodConsensus0.60section
Multiple sequence alignmenthas methodThere0.60section
Multiple sequence alignmenthas methodM-COFFEE0.60section
Multiple sequence alignmenthas methodMergeAlign0.60section
Multiple sequence alignmenthas methodThe0.60section
Multiple sequence alignmenthas methodMost0.60section
Multiple sequence alignmenthas methodThis0.60section

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