Multiple Protein Sequence Alignment with MSAProbs

Publikationstyp:
Kapitel
Metadaten:
Autoren
Autoren-URL
https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=fis-test-1&SrcAuth=WosAPI&KeyUT=WOS:000328376500015&DestLinkType=FullRecord&DestApp=WOS_CPL
DOI
10.1007/978-1-62703-646-7_14
ISBN-13
978-1-62703-646-7
Schlüsselwörter
  • Multiple sequence alignment
  • Progressive alignment
  • Hidden Markov models
  • Partition function
  • Consistency-based scheme
Paginierung
211 - 218
Buchtitel
MULTIPLE SEQUENCE ALIGNMENT METHODS
Datum der Veröffentlichung
2014
Status
Published
Titel
Multiple Protein Sequence Alignment with MSAProbs
Ausgabe der Zeitschrift
1079

Datenquelle: Web of Science (Lite)

Andere Metadatenquellen:
Autoren
DOI
10.1007/978-1-62703-646-7_14
ISBN-13
9781627036450
Online publication date
2013
Paginierung
211 - 218
Buchtitel
Methods in Molecular Biology
Datum der Veröffentlichung
2014
Status
Published
Herausgeber
Humana Press
Herausgeber URL
http://dx.doi.org/10.1007/978-1-62703-646-7_14
Datum der Datenerfassung
2019
Titel
Multiple Protein Sequence Alignment with MSAProbs

Datenquelle: Crossref

Abstract
Multiple sequence alignment (MSA) generally constitutes the foundation of many bioinformatics studies involving functional, structural, and evolutionary relationship analysis between sequences. As a result of the exponential computational complexity of the exact approach to producing optimal multiple alignments, the majority of state-of-the-art MSA algorithms are designed based on the progressive alignment heuristic. In this chapter, we outline MSAProbs, a parallelized MSA algorithm for protein sequences based on progressive alignment. To achieve high alignment accuracy, this algorithm employs a hybrid combination of a pair hidden Markov model and a partition function to calculate posterior probabilities. Furthermore, we provide some practical advice on the usage of the algorithm.
Addresses
  • Institut für Informatik, Johannes Gutenberg Universitat Mainz, Mainz, Germany.
Autoren
DOI
10.1007/978-1-62703-646-7_14
Open access
false
Schlüsselwörter
  • Proteins
  • Markov Chains
  • Sequence Alignment
  • Computational Biology
  • Algorithms
  • Software
Medium
Print
Paginierung
211 - 218
Datum der Veröffentlichung
2014
Status
Published
Datum der Datenerfassung
2013
Titel
Multiple protein sequence alignment with MSAProbs.
Ausgabe der Zeitschrift
1079

Datenquelle: Europe PubMed Central

Abstract
Multiple sequence alignment (MSA) generally constitutes the foundation of many bioinformatics studies involving functional, structural, and evolutionary relationship analysis between sequences. As a result of the exponential computational complexity of the exact approach to producing optimal multiple alignments, the majority of state-of-the-art MSA algorithms are designed based on the progressive alignment heuristic. In this chapter, we outline MSAProbs, a parallelized MSA algorithm for protein sequences based on progressive alignment. To achieve high alignment accuracy, this algorithm employs a hybrid combination of a pair hidden Markov model and a partition function to calculate posterior probabilities. Furthermore, we provide some practical advice on the usage of the algorithm.
Autoren
Autoren-URL
https://www.ncbi.nlm.nih.gov/pubmed/24170405
DOI
10.1007/978-1-62703-646-7_14
Schlüsselwörter
  • Algorithms
  • Computational Biology
  • Markov Chains
  • Proteins
  • Sequence Alignment
  • Software
Paginierung
211 - 218
Datum der Veröffentlichung
2014
Status
Published
Datum, an dem der Datensatz öffentlich gemacht wurde
2014
Titel
Multiple protein sequence alignment with MSAProbs.
Ausgabe der Zeitschrift
1079

Datenquelle: PubMed

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